ChIPseeker: an R/Bioconductor package for ChIP peak annotation, comparison and visualization.
paper
Cited
Public
Unavailable
- Authors
- Yu, Guangchuang; Wang, Li-Gen; He, Qing-Yu
- Year
- 2015
- Journal
- Bioinformatics (Oxford, England)
- PMID
- 25765347
- DOI
- 10.1093/bioinformatics/btv145
UNLABELLED: ChIPseeker is an R package for annotating ChIP-seq data analysis. It supports annotating ChIP peaks and provides functions to visualize ChIP peaks coverage over chromosomes and profiles of peaks binding to TSS regions. Comparison of ChIP peak profiles and annotation are also supported. Moreover, it supports evaluating significant overlap among ChIP-seq datasets. Currently, ChIPseeker contains 15 000 bed file information from GEO database. These datasets can be downloaded and compare with user's own data to explore significant overlap datasets for inferring co-regulation or transcription factor complex for further investigation. AVAILABILITY AND IMPLEMENTATION: ChIPseeker is released under Artistic-2.0 License. The source code and documents are freely available through Bioconductor (http://www.bioconductor.org/packages/release/bioc/html/ChIPseeker.html).
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| An epigenome atlas of mouse adipocytes. | Hinte LC et al. | β | 2025 | β |
| Annotation of cis-regulatory-associated histone modifications in the genomes of two Thoroughbred stallions. | Barber AM et al. | β | 2025 | β |
| An Nrf2-NF-ΞΊB Crosstalk Controls Hepatocyte Proliferation in the Normal and Injured Liver. | Kuklin A et al. | β | 2025 | β |
| A noncanonical role of roX RNAs in autosomal epigenetic repression. | Li J et al. | β | 2025 | β |
| An Oryza-specific histone H4 variant predisposes H4 lysine 5 acetylation to modulate salt stress responses. | Gandhivel VH et al. | β | 2025 | β |
| A Novel Nuclear Protein Complex Controlling the Expression of Developmentally Regulated Genes in Toxoplasma Gondii. | Xue L et al. | β | 2025 | β |
| Anther-specific expression of MsMYB35 transcription factor in alfalfa (Medicago sativa L.) and its crucial role in pollen development. | Cai H et al. | β | 2025 | β |
| Anthracyclines induce global changes in cardiomyocyte chromatin accessibility that overlap with cardiovascular disease loci. | Matthews ER et al. | β | 2025 | β |
| Antigen specificity shapes distinct aging trajectories of memory CD8βΊ T cells. | Sturmlechner I et al. | β | 2025 | β |
| AP2X-1 is a negative regulator of <i>Toxoplasma gondii</i> sexual commitment. | Sun L-X et al. | β | 2025 | β |
| A pair of readers of histone H3K4 methylation recruit Polycomb repressive complex 2 to regulate photoperiodic flowering. | Luo X et al. | β | 2025 | β |
| A PHF19-YTHDC1 condensate switches EZH2-mediated gene suppression to activation for prostate cancer progression. | Yuan S et al. | β | 2025 | β |
| A phosphorylation switch in the Mediator MED15 controls cellular senescence and cognitive decline. | Li H et al. | β | 2025 | β |
| A pilot multi-omics study reveals genetic mechanisms regulating milk component traits in dairy cattle. | Zheng W et al. | β | 2025 | β |
| Aquarius helicase facilitates HIV-1 integration into R-loop enriched genomic regions. | Penzo C et al. | β | 2025 | β |
| A rapid chemical reprogramming system to generate human pluripotent stem cells. | Wang Y et al. | β | 2025 | β |
| ASB7 is a negative regulator of H3K9me3 homeostasis. | Zhou L et al. | β | 2025 | β |
| A single-cell and spatial wheat root atlas with cross-species annotations delineates conserved tissue-specific marker genes and regulators. | Ke Y et al. | β | 2025 | β |
| A single-cell multi-omics atlas of rice. | Wang X et al. | β | 2025 | β |
| A SlRBP1-<i>SlFBA7/SlGPIMT</i> module regulates fruit size in tomato. | Cheng K et al. | β | 2025 | β |
| A stem cell differentiation model reveals two alternative fates in CBFA2T3::GLIS2-driven acute megakaryoblastic leukemia initiation. | Shoeb MR et al. | β | 2025 | β |
| A subset of group S1 bZIP transcription factors controls resource management during starvation and recovery in Arabidopsis. | Wildenhain T et al. | β | 2025 | β |
| A Super Enhancer-Derived Enhancer RNA Acts Together with CTCF/Cohesin in Trans to Regulate Erythropoiesis. | Xie B et al. | β | 2025 | β |
| Attenuated Nuclear Tension Regulates Progerin-Induced Mechanosensitive Nuclear Wrinkling and Chromatin Remodeling. | Park JE et al. | β | 2025 | β |
| BASAL: a universal mapping algorithm for nucleotide base-conversion sequencing. | Xu M et al. | β | 2025 | β |
| BcWRKY25-BcWRKY33A-BcLRP1/BcCOW1 module promotes root development for improved salt tolerance in Bok choy. | Wang H et al. | β | 2025 | β |
| Beclin 1 prevents ISG15-mediated cytokine storms to secure fetal hematopoiesis and survival. | Wei W et al. | β | 2025 | β |
| Binding of NF-Y to transposable elements in mouse and human cells. | Ronzio M et al. | β | 2025 | β |
| Bisphenol S Exposure and MASLD: A Mechanistic Study in Mice. | Li S et al. | β | 2025 | β |
| Blocking nuclear receptor Nr4a3 unlocks the senescence barrier to promote direct cardiac reprogramming. | Liu M et al. | β | 2025 | β |
| Bone morphogenetic protein (BMP) signaling determines neuroblastoma cell fate and sensitivity to retinoic acid. | Pan M et al. | β | 2025 | β |
| BRD4 acts as a transcriptional repressor of RhoB to inhibit terminal erythropoiesis. | Chen Y et al. | β | 2025 | β |
| BRD9 inhibition overcomes oncolytic virus therapy resistance in glioblastoma. | Guo C et al. | β | 2025 | β |
| Bromodomain-containing proteins interact with a non-canonical RNA polymerase II kinase to maintain gene expression upon heat stress. | Zheng X et al. | β | 2025 | β |
| Bromodomain proteins IBD1 and IBD2 link histone acetylation to SWR1- and INO80-mediated H2A.Z regulation in Tetrahymena. | Garg J et al. | β | 2025 | β |
| Building a bovine blood DNA methylation epimap related to disease phenotypes. | Bouzeraa L et al. | β | 2025 | β |
| C1q reprograms innate immune memory. | Jonkman I et al. | β | 2025 | β |
| Cancer cell type-specific derepression of transposable elements by inhibition of chromatin modifier enzymes. | Patel D et al. | β | 2025 | β |
| Catalytically distinct metabolic enzyme isocitrate dehydrogenase 1 mutants tune phenotype severity in tumor models. | Schwartz AV et al. | β | 2025 | β |
| Cdh2, a downstream target of Hes7, regulates somitogenesis by supporting FGF signalling. | Jia X et al. | β | 2025 | β |
| CDT1 is a Potential Therapeutic Target for the Progression of NAFLD to HCC and the Exacerbation of Cancer. | He X et al. | β | 2025 | β |
| Cervicovaginal microbiome alters transcriptomic and chromatin accessibility signatures across cervicovaginal epithelial barriers. | Anton L et al. | β | 2025 | β |
| Changes in gene expression levels caused by H3K9me3/H3K9ac modifications are associated with BmCPV infection in <i>Bombyx mori</i>. | Qiu Q et al. | β | 2025 | β |
| Characteristic analysis of N<sup>6</sup>-methyladenine in different parts of yak epididymis. | Ding Z et al. | β | 2025 | β |
| Characterization and functional analysis of conserved non-coding sequences among poaceae: insights into gene regulation and phenotypic variation in maize. | Luo Y et al. | β | 2025 | β |
| Characterizing heterogeneous cis-regulatory elements in gene regulatory programs associated with breast cancer. | Hori C et al. | β | 2025 | β |
| Chip (Ldb1) is a putative cofactor of Zelda forming a functional bridge to CBP during zygotic genome activation. | Galouzis CC et al. | β | 2025 | β |
| Chromatin accessibility analysis reveals functional cis-regulatory regions related to fruit development and domestication in tomato. | Cheng YJ et al. | β | 2025 | β |
| Chromatin accessibility and differentially expressed genes profiling in large yellow croaker (<i>Larimichthys crocea</i>) head kidney cells following iridovirus infection. | Song C et al. | β | 2025 | β |
| Chromatin accessibility and transcriptomic profiles of sheep pituitary function associated with fecundity. | Li S et al. | β | 2025 | β |
| Chromatin accessibility derived from cfDNA serves as a novel classification biomarker of glioma. | Wu Q et al. | β | 2025 | β |
| Chromatin accessibility dynamics and transcriptional regulatory networks underlying the primary nitrogen response in rice roots. | Li W et al. | β | 2025 | β |
| Chromatin-dependent motif syntax defines differentiation trajectories. | Durdu S et al. | β | 2025 | β |
| Chromatin dynamics and transcriptional regulation of heat stress in an ectothermic fish. | Huang S et al. | β | 2025 | β |
| Chromatin environment-dependent effects of DOT1L on gene expression in male germ cells. | CoulΓ©e M et al. | β | 2025 | β |
| Chromatin landscape alteration uncovers multiple transcriptional circuits during memory CD8+ T-cell differentiation. | Liu Q et al. | β | 2025 | β |
| Chromatin landscape in paired human visceral and subcutaneous adipose tissue and its impact on clinical variables in obesity. | Saeed S et al. | β | 2025 | β |
| Chromatin profiling identifies putative dual roles for H3K27me3 in regulating cell type-specific genes and transposable elements in choanoflagellates. | Gahan JM et al. | β | 2025 | β |
| Chromatin remodeling protein BPTF mediates chromatin accessibility at gene promoters in planarian stem cells. | Verma P et al. | β | 2025 | β |
| Chromatin State Maps of Blood Pressure-Relevant Renal Segments Reveal Potential Regulatory Role for SNPs. | Ray A et al. | β | 2025 | β |
| Chromosome-level genome assembly assisting for dissecting mechanism of anthocyanin regulation in kiwifruit (Actinidia arguta). | Li Y et al. | β | 2025 | β |
| Circular RMST cooperates with lineage-driving transcription factors to govern neuroendocrine transdifferentiation. | Teng M et al. | β | 2025 | β |
| Cis-regulation analysis of RNA m6A methylation and gene expression in colorectal cancer. | Lin ZL et al. | β | 2025 | β |
| CK2 kinase-PRC2 signalling regulates genome-wide H3K27 trimethylation and transduces prolonged cold exposure into epigenetic cold memory in plants. | Zeng X et al. | β | 2025 | β |
| Clinical and Prognostic Implications of an Alternative Splicing-related Risk Model Based on TP53 Status in Breast Cancer. | Wang X et al. | β | 2025 | β |
| Clinical response to azacitidine in MDS is associated with distinct DNA methylation changes in HSPCs. | Thoms JAI et al. | β | 2025 | β |
| CLNS1A regulates genome stability and cell cycle progression to control CD4 T cell function and autoimmunity. | Wang L et al. | β | 2025 | β |
| Cockayne syndrome B protein is implicated in transcription and associated chromatin dynamics in homeostatic and genotoxic conditions. | Liakos A et al. | β | 2025 | β |
| Co-condensation between transcription factor and cBAF selectively modulates chromatin remodeling and gene expression. | Ye X et al. | β | 2025 | β |
| Combining ATAC-seq and RNA-seq reveals key genes for gonadal abnormalities in one-month-old XX-DSD pigs. | Yu C et al. | β | 2025 | β |
| Comparative analysis of DREB gene family in buckwheat: the role of FtDREB02 in the delphinidin biosynthesis and drought stress response. | Wang J et al. | β | 2025 | β |
| Comparative analysis of improved m6A sequencing based on antibody optimization for low-input samples. | Lu J et al. | β | 2025 | β |
| Comparative single-cell multiome identifies evolutionary changes in neural progenitor cells during primate brain development. | Liu Y et al. | β | 2025 | β |
| Comparing Alzheimer's genes in African, European, and Amerindian induced pluripotent stem cell-derived microglia. | Moura S et al. | β | 2025 | β |
| Comparison of chromatin accessibility remodeling of granulosa cells in patients with endometrioma or pelvic/tubal infertility. | Ou S et al. | β | 2025 | β |
| Comprehensive analysis of m6A-seq data reveals distinct features of conserved and unique m6A sites in mammals. | Chai GS et al. | β | 2025 | β |
| Comprehensive analysis of the transcriptome-wide m6A Methylome in sheep testicular development. | Xi B et al. | β | 2025 | β |
| Comprehensive functional annotation of ESR1-driven enhancers in breast cancer reveals hierarchical activity independent of genomic and epigenomic contexts. | Zekri Y et al. | β | 2025 | β |
| Comprehensive single-cell aging atlas of healthy mammary tissues reveals shared epigenomic and transcriptomic signatures of aging and cancer. | Angarola BL et al. | β | 2025 | β |
| Comprehensive transcriptional regulatory networks in potato through chromatin accessibility and transcriptome under drought and salt stresses. | Wen S et al. | β | 2025 | β |
| Connexin46 in the nucleus of cancer cells: a possible role as transcription modulator. | FernΓ‘ndez-Olivares A et al. | β | 2025 | β |
| Conserved HSFA1-dependent chromatin dynamics drive heat stress responses in plants. | Yen MJ et al. | β | 2025 | β |
| Constructing epigenetic regulatory landscapes of plant lncRNAs-an exploration utilizing the novel specialized platform PERlncDB. | Li Y et al. | β | 2025 | β |
| Contrasting roles of KMT2C and KMT2D in breast cancer. | Tinsley E et al. | β | 2025 | β |
| Control of ciliary transcriptional programs during spermatogenesis by antagonistic transcription factors. | Wang W et al. | β | 2025 | β |
| Cooperation between architectural C2H2 proteins in CP190 recruitment to Drosophila regulatory elements. | Maksimenko O et al. | β | 2025 | β |
| CREBBP inactivation sensitizes B cell acute lymphoblastic leukemia to ferroptotic cell death upon BCL2 inhibition. | Garcia-Gimenez A et al. | β | 2025 | β |
| c-Rel drives pancreatic cancer metastasis through fibronectin-integrin signaling-induced isolation stress resistance and EMT. | BakΔ±rdΓΆΔen D et al. | β | 2025 | β |
| CREM is a regulatory checkpoint of CAR and IL-15 signalling in NK cells. | Rafei H et al. | β | 2025 | β |
| CRISPR screen decodes SWI/SNF chromatin remodeling complex assembly. | Schwaemmle H et al. | β | 2025 | β |
| CsAPRR2 regulates cucumber immature fruit color by coordinating chloroplast biogenesis and photosynthesis-related gene expression. | Liu H et al. | β | 2025 | β |
| CTCF Point Mutation at R567 Disrupts Mouse Heart Development via 3D Genome Rearrangement and Transcription Dysregulation. | Ren H et al. | β | 2025 | β |
| CUT&Tag recovers up to half of ENCODE ChIP-seq histone acetylation peaks. | Abbasova L et al. | β | 2025 | β |
| DAXX-dependent H3.3 deposition maintains myoblast cell identity independently of other histone chaperone complexes. | Zoglio V et al. | β | 2025 | β |
| DDX39A resolves replication fork-associated RNA-DNA hybrids to balance fork protection and cleavage for genomic stability maintenance. | Xu Z et al. | β | 2025 | β |
| DDX55 safeguards naΓ―ve T cell homeostasis by suppressing activation-promoting transposable elements. | Wu M et al. | β | 2025 | β |
| DEC1 promotes breast cancer bone metastasis through transcriptional activation of CXCR4. | Huo Y et al. | β | 2025 | β |
| Deciphering Sequence Determinants of Zygotic Genome Activation Genes: Insights From Machine Learning and the ZGAExplorer Platform. | Xing J et al. | β | 2025 | β |
| Deciphering the role of histone modifications in memory and exhausted CD8 T cells. | Huang H et al. | β | 2025 | β |
| deepTFBS: Improving within- and Cross-Species Prediction of Transcription Factor Binding Using Deep Multi-Task and Transfer Learning. | Zhai J et al. | β | 2025 | β |
| De novo assembly of nuclear stress bodies rearranges and enhances NFIL3 to restrain acute inflammatory responses. | Liu XQ et al. | β | 2025 | β |
| Design of optimized epigenetic regulators for durable gene silencing with application to PCSK9 in nonhuman primates. | Mao S et al. | β | 2025 | β |
| Detection of Genome-Wide IGF-1R Recruitment to Enhancer and Promoter Regions of Chromatin in Clinical Prostate Cancers. | Mills JV et al. | β | 2025 | β |
| Development of an Anti-CD99 Antibody Enables Targeting of Diffuse Midline Glioma. | Balakrishnan I et al. | β | 2025 | β |
| Diet-induced obesity induces oxidative stress and enhances H3K4me3 levels, driving nonresolving inflammation and myelopoiesis in hematopoietic stem and progenitor cells. | Takahashi K et al. | β | 2025 | β |
| Dishevelled-1 regulates global transcriptomic changes and associates with ETS1 transcription factor. | Martinez-Marin D et al. | β | 2025 | β |
| Disrupting the interaction between androgen receptor and its coregulator WDR77 delays the growth of treatment-resistant prostate cancer. | Dahiya UR et al. | β | 2025 | β |
| Dissecting cross-lineage tumourigenesis under p53 inactivation through single-cell multi-omics and spatial transcriptomics. | Wang X et al. | β | 2025 | β |
| Distinct adipose progenitor cells emerging with age drive active adipogenesis. | Wang G et al. | β | 2025 | β |
| Distinct BMP-Smad signaling outputs confer diverse functions in dental mesenchyme. | Tang Q et al. | β | 2025 | β |
| Distinct proliferative and neuronal programmes of chromatin binding and gene activation by ASCL1 are cell cycle stage-specific. | Beckman WF et al. | β | 2025 | β |
| Distinct roles of Atf3, Zfp711 and Bcl6b in early embryonic hematopoietic and endothelial lineage specification. | Cetin R et al. | β | 2025 | β |
| Divergence between neural and retinal lineage specification during human brain development by signal transduction. | Nam KH et al. | β | 2025 | β |
| Divergent FOXA1 mutations drive prostate tumorigenesis and therapy-resistant cellular plasticity. | Eyunni S et al. | β | 2025 | β |
| DNA-binding affinity and specificity determine the phenotypic diversity in BCL11B-related disorders. | Lessel I et al. | β | 2025 | β |
| DNA Methylation Biomarkers Predict Offspring Metabolic Risk From Mothers With Hyperglycemia in Pregnancy. | Assaf J et al. | β | 2025 | β |
| DNA methylation in monozygotic twins discordant for acute lymphoblastic leukemia: a case report and systematic review. | Sun ML et al. | β | 2025 | β |
| DNA remnants in red blood cells enable early detection of cancer. | Sun H et al. | β | 2025 | β |
| Dual Inhibition of CDK4/6 and CDK7 Suppresses Triple-Negative Breast Cancer Progression via Epigenetic Modulation of SREBP1-Regulated Cholesterol Metabolism. | Yang Y et al. | β | 2025 | β |
| Dual targeting of G9a and DNMTs induces antitumor effects in multiple myeloma. | Nylund P et al. | β | 2025 | β |
| Duplication of the autism-related gene Chd8 leads to behavioral hyperactivity and neurodevelopmental defects in mice. | Kawamura A et al. | β | 2025 | β |
| DUX4 activates common and context-specific intergenic transcripts and isoforms. | Zheng D et al. | β | 2025 | β |
| DUX-mediated configuration of p300/CBP drives minor zygotic genome activation independent of its catalytic activity. | Xiao L et al. | β | 2025 | β |
| Dynamic Chromatin Accessibility and Transcriptional Regulation in the Eyes of Red Tilapia (Oreochromis sp.) in Response to Wintering Stress. | Bai Y et al. | β | 2025 | β |
| Dynamic control of H2A.Zub and H3K27me3 by ambient temperature during cell fate determination in Arabidopsis. | Zhu K et al. | β | 2025 | β |
| Dynamic epigenomic landscape and gene regulatory networks during embryonic development in Pacific white shrimp (Litopenaeus vannamei) as revealed by histone modification profiling using CUT&Tag. | Shi J et al. | β | 2025 | β |
| Dynamic properties of enhancer and promoter during DNA damage in hepatocellular carcinoma. | Zhang J et al. | β | 2025 | β |
| Dynamics and regulatory roles of RNA m<sup>6</sup>A methylation in unbalanced genomes. | Zhang S et al. | β | 2025 | β |
| Dynamics of duplicated gene regulatory networks governing cotton fiber development following polyploidy. | Xiong X et al. | β | 2025 | β |
| Dynamic transcriptional and epigenetic changes define postnatal tendon growth. | Dingwall HL et al. | β | 2025 | β |
| Early methionine availability attenuates Tβcell exhaustion. | Sharma P et al. | β | 2025 | β |
| Early transcriptional effects of inflammatory cytokines reveal highly redundant cytokine networks. | Lee JJ et al. | β | 2025 | β |
| Echinocandin Adaptation in <i>Candida albicans</i> Is Accompanied by Altered Chromatin Accessibility at Gene Promoters and by Cell Wall Remodeling. | Sah SK et al. | β | 2025 | β |
| Echs1-mediated histone crotonylation facilitates zygotic genome activation and expression of repetitive elements in early mammalian embryos. | Wang YF et al. | β | 2025 | β |
| Ecotype-specific phenolic acid accumulation and root softness in Salvia miltiorrhiza are driven by environmental and genetic factors. | Yu H et al. | β | 2025 | β |
| Editing DNA methylation in vivo. | Pan R et al. | β | 2025 | β |
| Endogenous YAP/TAZ partitioning in TEAD condensates orchestrates the Hippo response. | Zhu T et al. | β | 2025 | β |
| Endometrial aging is accompanied by H3K27ac and PGR loss. | Wang Y et al. | β | 2025 | β |
| Endometrial tumorigenesis involves epigenetic plasticity demarcating non-coding somatic mutations and 3D-genome alterations. | Gregoricchio S et al. | β | 2025 | β |
| Endurance training promotes chromatin closure and timely repression of the post-exercise immediate early stress response. | de Smalen LM et al. | β | 2025 | β |
| Enhancer Extrachromosomal Circular DNA ANKRD28 Elicits Drug Resistance via POU2F2-Mediated Transcriptional Network in Multiple Myeloma. | Chen B et al. | β | 2025 | β |
| Enhancer remodeling by OTX2 directs specification and patterning of mammalian definitive endoderm. | Ee LS et al. | β | 2025 | β |
| Enhancing genetic transformation efficiency in cucurbit crops through AtGRF5 overexpression: Mechanistic insights and applications. | Li Y et al. | β | 2025 | β |
| Enhancing R-loop prediction with high-throughput sequencing data. | Vanhaeren T et al. | β | 2025 | β |
| EOMES establishes mesoderm and endoderm differentiation potential through SWI/SNF-mediated global enhancer remodeling. | SchrΓΆder CM et al. | β | 2025 | β |
| Epigenetically modulating macrophage subpopulations to promote long-term allograft survival in a mouse heart transplant model. | Su X et al. | β | 2025 | β |
| Epigenetically poised chromatin states regulate <i>PRR</i> and <i>NLR</i> genes in soybean. | Jin L et al. | β | 2025 | β |
| Epigenetic control of topoisomerase 1 activity presents a cancer vulnerability. | Lee TH et al. | β | 2025 | β |
| Epigenetic dysregulation of energy homeostasis drives aortic valve stenosis that is treatable with metformin. | Cashman TJ et al. | β | 2025 | β |
| Epigenetic insights into fertility: involvement of immune cell methylation in dairy cows reproduction. | Bouzeraa L et al. | β | 2025 | β |
| Epigenetic priming of neural progenitors by Notch enhances Sonic hedgehog signaling and establishes gliogenic competence. | Tran LN et al. | β | 2025 | β |
| Epigenetic profiling identifies markers of endocrine resistance and therapeutic options for metastatic castration-resistant prostate cancer. | Severson TM et al. | β | 2025 | β |
| Epigenetic regulation and maternal-to-zygotic transition in dwarf surf clam ( <i>Mulinia lateralis</i>): Insights from chromatin state profiling and transcriptomics. | Shi JL et al. | β | 2025 | β |
| Epigenetic regulation and mechanobiological adaptation in tenocytes during maturation. | Zhang EY et al. | β | 2025 | β |
| Epigenetic regulation of ACSL4 via H2A monoubiquitylation connects lipid metabolism to BAP1-mediated ferroptosis. | Fan K et al. | β | 2025 | β |
| Epigenetic regulation of <i>JASMONATE ZIM-DOMAIN</i> genes contributes to heat tolerance in the heat-tolerant rice cultivar Nagina 22. | Du X et al. | β | 2025 | β |
| Epigenetic study of the long-term effects of gulf War illness. | Jones BC et al. | β | 2025 | β |
| Epigenome profiling identifies H3K27me3 regulation of extracellular matrix composition in human corticogenesis. | Ditzer N et al. | β | 2025 | β |
| Epigenome profiling reveals distinctive regulatory features and cis-regulatory elements in pepper. | Yang H et al. | β | 2025 | β |
| Epigenomic profiling of immune cell subtypes reveals H3K27ac-marked stress signatures after long-duration spaceflight. | Fullstone TL et al. | β | 2025 | β |
| Epigenomic profiling of papillary thyroid carcinoma reveals distinct subtypes with clinical implications. | Lee Y et al. | β | 2025 | β |
| Epithelial Memory After Respiratory Viral Infection in Mice Results in Prolonged Enhancement of Antigen Presentation. | Janas PP et al. | β | 2025 | β |
| Epitranscriptomic reprogramming in response to low CO<sub>2</sub> stress and m<sup>6</sup>A engineering to enhance biomass production in Nannochloropsis oceanica. | Zhu H et al. | β | 2025 | β |
| Epstein-Barr virus reprograms autoreactive B cells as antigen-presenting cells in systemic lupus erythematosus. | Younis S et al. | β | 2025 | β |
| Establishment of neuronal and glial competence of neural stem cells requires distinct enzymatic activities of TET enzymes. | Ebert BC et al. | β | 2025 | β |
| Establishment of sex-specific liver transcriptomes and H3K9me3 profiles during sexual maturity: the impact of maternal obesity. | Yadav AK et al. | β | 2025 | β |
| Estrogen receptor-Ξ± ablation reverses muscle fibrosis and inguinal hernias. | Potluri T et al. | β | 2025 | β |
| Ethylene modulates the phenylpropanoid pathway by enhancing <i>VvMYB14</i> expression via the ERF5-melatonin-ERF104 pathway in grape seeds. | Gao S et al. | β | 2025 | β |
| ETV2/ER71 regulates hematovascular lineage generation and vascularization through an H3K9 demethylase, KDM4A. | Kim MS et al. | β | 2025 | β |
| Evaluating Reproducibility and Best Practices for Replicate Design in G-Quadruplex ChIP-Seq Studies. | Xiao K et al. | β | 2025 | β |
| Evolutionary Process Underlying Receptor Gene Expansion and Cellular Divergence of Olfactory Sensory Neurons in Honeybees. | Zhang W et al. | β | 2025 | β |
| EWS::FLI1 expression in human embryonic mesenchymal stem cells leads to transcriptional reprograming, defective DNA damage repair and Ewing sarcoma. | HernΓ‘ndez-MuΓ±oz I et al. | β | 2025 | β |
| Expanding the cytokine receptor alphabet reprograms T cells into diverse states. | Zhao Y et al. | β | 2025 | β |
| Exploring the maize transcriptional regulatory landscape through large-scale profiling of transcription factor binding sites. | Huo Q et al. | β | 2025 | β |
| EZH2 variants derived from cryptic splice sites govern distinct epigenetic patterns during embryonic development. | Guo N et al. | β | 2025 | β |
| FOS-driven inflammatory CAFs promote colorectal cancer liver metastasis via the SFRP1-FGFR2-HIF1 axis. | Liu L et al. | β | 2025 | β |
| FoxP3 forms a head-to-head dimer in vivo and stabilizes its multimerization on adjacent microsatellites. | Leng F et al. | β | 2025 | β |
| FTDC1/2, oocyte-specific cofactors of DNMT1 required for epigenetic regulation and embryonic development. | Li C et al. | β | 2025 | β |
| FTO regulates ELK3-mediated metabolic rewiring and represents a unique therapeutic target in T cell leukemia. | Huang H et al. | β | 2025 | β |
| Functional characterisation of WRKY transcription factor CrWRKY48 involved in regulating seed abortion of Ponkan (Citrus reticulata). | Lu L et al. | β | 2025 | β |
| Functional characterization of eQTLs and asthma risk loci with scATAC-seq across immune cell types and contexts. | Wei J et al. | β | 2025 | β |
| Functional characterization of the ATOH1 molecular subtype indicates a pro-metastatic role in small cell lung cancer. | Catozzi A et al. | β | 2025 | β |
| Functional diversification of the MADS-box gene family in fine-tuning the dimorphic transition of <i>Talaromyces marneffei</i>. | Hu X et al. | β | 2025 | β |
| Functional genetics of rice PISTILLATA genes reveals new roles and target genes in flowering time, female fertility, and parthenocarpy. | Zamzam M et al. | β | 2025 | β |
| FXR adapts hepatic mitochondrial function to increased substrate oxidation in patients with obesity. | Panzitt K et al. | β | 2025 | β |
| G1-mediated OsMADS1 repression regulates sterile lemma development in rice. | Qin X et al. | β | 2025 | β |
| Gastrula-Premarked Posterior Enhancer Primes Posterior Tissue Development Through Cross-Talk with TGF-Ξ² Signaling Pathway. | Chen Y et al. | β | 2025 | β |
| Gene regulatory dynamics during craniofacial development in a carnivorous marsupial. | Cook LE et al. | β | 2025 | β |
| Genetic coupling of enhancer activity and connectivity in gene expression control. | Ray-Jones H et al. | β | 2025 | β |
| Genetic determinants of monocyte splicing are enriched for disease susceptibility loci. | Nassiri I et al. | β | 2025 | β |
| Genetic Regulation Differences of VRS Genes in the Development of Lateral Spikelets in Two-Rowed Barley. | Shen L et al. | β | 2025 | β |
| Genome assembly and DNA methylation variation in an epimutant population of hybrid poplar clone NL895. | He J et al. | β | 2025 | β |
| Genome-scale CRISPR screens identify PTGES3 as a direct modulator of androgen receptor function in advanced prostate cancer. | Li H et al. | β | 2025 | β |
| Genome-wide analysis of Q binding reveals a regulatory network that coordinates wheat grain yield and grain protein content. | Zhu J et al. | β | 2025 | β |
| Genome-wide chromatin accessibility and selective signals of meat rabbits reveal key Cis-regulatory elements and variants during postnatal development of skeletal muscles in rabbits. | Du K et al. | β | 2025 | β |
| Genome-wide DNA methylation dynamics at "heading" stage of panicle and flag leaf in contrasting rice cultivars under field drought conditions. | Jajo R et al. | β | 2025 | β |
| Genome-wide identification of NAC family and functional characterization of NtNAC236 in tobacco (Nicotiana tabacum). | Xu T et al. | β | 2025 | β |
| Genome-wide identification of the H3K27ac signals reveals key thermogenic cis-regulatory elements of brown adipose tissues in Oryctolagus cuniculus. | Du K et al. | β | 2025 | β |
| Genome-wide mapping of cAMP receptor protein binding in enteroaggregative <i>Escherichia coli</i> reveals targeting of virulence-associated genes. | Alhammadi MM et al. | β | 2025 | β |
| Genome-wide profiling and functional study of short N-terminal H2B variants in Arabidopsis. | Yao P et al. | β | 2025 | β |
| Genome-Wide Silencer Screening Reveals Key Silencer Modulating Reprogramming Efficiency in Mouse Induced Pluripotent Stem Cells. | Zhu X et al. | β | 2025 | β |
| GhLPF1 Associated Network Is Involved with Cotton Lint Percentage Regulation Revealed by the Integrative Analysis of Spatial Transcriptome. | Wu H et al. | β | 2025 | β |
| Global chromatin reorganization and regulation of genes with specific evolutionary ages during differentiation and cancer. | Raynal F et al. | β | 2025 | β |
| Global identification and functional characterization of Z-DNA in rice. | He Z et al. | β | 2025 | β |
| Glucose modulates IRF6 transcription factor dimerization to enable epidermal differentiation. | Lopez-Pajares V et al. | β | 2025 | β |
| Glycolysis Induces Abnormal Transcription Through Histone Lactylation in T-cell Acute Lymphoblastic Leukemia. | Wu W et al. | β | 2025 | β |
| GT1 regulates maize sex determination by affecting the jasmonate pathway. | Lin Z et al. | β | 2025 | β |
| Guidelines to Analyze ChIP-Seq Data: Journey Through QC and Analysis Considerations. | De Kumar B et al. | β | 2025 | β |
| GWAS-based population genetic analysis identifies bZIP29 as a heterotic gene in maize. | Zhang J et al. | β | 2025 | β |
| H2A.Z primes an epigenetic landscape for memory CD8<sup>+</sup> T cell recall response. | Liang W et al. | β | 2025 | β |
| H2A.Z reinforces maternal H3K4me3 formation and is essential for meiotic progression in mouse oocytes. | Mei H et al. | β | 2025 | β |
| H3K79 methylation and H3K36 trimethylation synergistically regulate gene expression in pluripotent stem cells. | Cooke EW et al. | β | 2025 | β |
| H3K9me3 and H3K27me3 are epigenetic barriers to somatic cell nuclear transfer in rabbits. | Gao Y et al. | β | 2025 | β |
| HDGF Knockout Suppresses Colorectal Cancer Progression and Drug Resistance by Modulating the DNA Damage Response. | Su R et al. | β | 2025 | β |
| Heat inducible nuclear translocation of Kdm6bb drives temperature dependent sex reversal in Nile tilapia. | Lu J et al. | β | 2025 | β |
| HemaCisDB: An Interactive Database for Analyzing Cis-regulatory Elements Across Hematopoietic Malignancies. | Cai X et al. | β | 2025 | β |
| Heparan sulfate N-deacetylase/N-sulfotransferase-1 regulates glioblastoma cell migration and invasion. | Spyrou A et al. | β | 2025 | β |
| Heparan sulfate regulates myofibroblast heterogeneity and function to mediate niche homeostasis during alveolar morphogenesis. | He H et al. | β | 2025 | β |
| HIF1A facilitates hypoxia-induced changes in H3K27ac modification to promote myometrial contractility. | Ji K et al. | β | 2025 | β |
| High-resolution map of the Plasmodium falciparum genome reveals MORC/ApiAP2-mediated links between distant, functionally related genes. | Singh P et al. | β | 2025 | β |
| High-throughput capture of actively transcribed region-interacting sequences reveals an intricate promoter-centered regulatory network. | Li X et al. | β | 2025 | β |
| Histone acetyltransferase 1 promotes postinfarction inflammatory response by regulation of monocyte histone succinylation. | Guo Y et al. | β | 2025 | β |
| Histone acetyltransferase HAF2 associates with pyruvate dehydrogenase complex to control H3K14ac and H3K23ac in ethylene response. | Chen CY et al. | β | 2025 | β |
| Histone lactylation promotes rheumatoid arthritis progression by increasing NFATc2 expression and the production of anti-lactylated histone autoantibodies. | Wu G et al. | β | 2025 | β |
| Histone methyltransferases MLL2 and SETD1A/B play distinct roles in H3K4me3 deposition during the transition from totipotency to pluripotency. | Zhang J et al. | β | 2025 | β |
| Histone Modification-Dependent Transcriptional Regulation of Defence Genes in Early Response of Arabidopsis to Spodoptera litura Attack. | Yusuf A et al. | β | 2025 | β |
| HIV Integration into the PTEN Gene and Its Tumor Microenvironment Implications for Lung Cancer. | Smith DM et al. | β | 2025 | β |
| HSV-1 ICP22 condensates impair host transcription by depleting promoter RNAPII Ser-2P occupation. | Qi H et al. | β | 2025 | β |
| HSV-1 infection induces a downstream shift of the +1 nucleosome. | WeiΓ E et al. | β | 2025 | β |
| Human TSC2 mutant cells exhibit aberrations in early neurodevelopment accompanied by changes in the DNA Methylome. | Chalkley ML et al. | β | 2025 | β |
| Hypertranscription of rDNA Responsible for Nucleolar Remodelling is a Doorman for Acquiring Pluripotency. | Sun Y et al. | β | 2025 | β |
| Hypoxia-Driven Histone Modifications Govern Gene Regulation for Mature Eye Lens Formation. | Brennan L et al. | β | 2025 | β |
| Hypoxia increases methylated histones to prevent histone clipping and heterochromatin redistribution during Raf-induced senescence. | Chang S et al. | β | 2025 | β |
| Hypoxia induces histone clipping and H3K4me3 loss in neutrophil progenitors resulting in long-term impairment of neutrophil immunity. | Sanchez-Garcia MA et al. | β | 2025 | β |
| Hypoxia promotes airway differentiation in the human lung epithelium. | Dong Z et al. | β | 2025 | β |
| Hypoxic stress dysregulates functions of glioma-associated myeloid cells through epigenomic and transcriptional programs. | Dzwigonska M et al. | β | 2025 | β |
| Identification and catalog of viral transcriptional regulators in human diseases. | Citu C et al. | β | 2025 | β |
| Identification and molecular analysis of the Y-specific CpMp gene controlling long male peduncles in papaya. | Zhou Y et al. | β | 2025 | β |
| Identification of novel biomarkers for atherosclerosis using single-cell RNA sequencing and machine learning. | Yong X et al. | β | 2025 | β |
| Identification of ZNF384 as a regulator of epigenome in leukemia. | Vargas LCZ et al. | β | 2025 | β |
| IDH1 regulates human erythropoiesis by eliciting chromatin state reprogramming. | Li M et al. | β | 2025 | β |
| IMATAC imputes single-cell ATAC-seq data by deep hierarchical network with denoising autoencoder. | Li Y et al. | β | 2025 | β |
| Impacts of DNA Methylation on H2A.Z Deposition and Nucleosome Stability | Shih RM et al. | β | 2025 | β |
| Induction of SOX17 with stimulation of WNT, TGF-beta, and FGF signaling drives embryonal carcinomas into the yolk-sac tumor lineage resulting in increased cisplatin resistance. | Kotthoff M et al. | β | 2025 | β |
| Inflammation-related 5-hydroxymethylation signatures as markers for clinical presentations of coronary artery disease. | Xu J et al. | β | 2025 | β |
| Inhibiting EZH2 complements steroid effects in Duchenne muscular dystrophy. | Jeon EY et al. | β | 2025 | β |
| Innate immune molecular landscape following controlled human influenza virus infection. | Thistlethwaite W et al. | β | 2025 | β |
| Insect Resistance in <i>Quercus robur</i>: A Comparative Metabolomic and Transcriptomic Analysis of Normal and Curly Leaf Varieties. | Liao KY et al. | β | 2025 | β |
| Integrated multi-omics and experimental approaches identify fascin actin-bundling protein 1 as an unfavorable prognostic biomarker in adrenocortical carcinoma. | He P et al. | β | 2025 | β |
| Integrated single-cell multiomic profiling of caudate nucleus suggests key mechanisms in alcohol use disorder. | Green NC et al. | β | 2025 | β |
| Integrated Transcriptomic and Epigenomic Analysis Reveals Mechanisms Underlying Melanotic Spot Formation in Red Tilapia (<i>Oreochromis</i> spp.). | Qi Z et al. | β | 2025 | β |
| Integrating ATAC-Seq and Pan-Genomics Identifies Stress-Memory <i>AP2/ERF</i> Hubs in Foxtail Millet. | Li T et al. | β | 2025 | β |
| Integrating multi-omics features enables non-invasive early diagnosis and treatment response prediction of diffuse large B-cell lymphoma. | Zhang W et al. | β | 2025 | β |
| Integration of ATAC-Seq and RNA-Seq Reveals the Role of <i>FaTIP1</i> in Red Light-Induced Fruit Ripening in Strawberry. | Chen X et al. | β | 2025 | β |
| Integration of multiomic data identifies core-module of inherited-retinal diseases. | Singh A et al. | β | 2025 | β |
| Integration of Single-Cell RNA and Bulk RNA Sequencing Reveals Cellular Heterogeneity and Identifies Survival-Associated Regulatory Networks in Glioblastoma. | Xu Z et al. | β | 2025 | β |
| Integrative Analysis of ATAC-Seq and RNA-Seq Identifies Key Genes Affecting Muscle Development in Ningxiang Pigs. | Tan W et al. | β | 2025 | β |
| Integrative Analysis of DNA Methylation and Gene Expression Reveals Key Molecular Signatures in Spatial Memory Impairment of Sepsis-Associated Encephalopathy. | Liu X et al. | β | 2025 | β |
| Integrative Methylome and Transcriptome Analysis Reveals Epigenetic Regulation of Pigmentation in Oujiang Color Common Carp. | Zhao W et al. | β | 2025 | β |
| Integrative multi-omics data provide insights into the biosynthesis of furanocoumarins and mechanisms regulating their accumulation in Angelica dahurica. | Ji J et al. | β | 2025 | β |
| Integrative multiomics reveals common endotypes across PSEN1, PSEN2, and APP mutations in familial Alzheimer's disease. | Valdes P et al. | β | 2025 | β |
| Integrative single-cell RNA and ATAC sequencing reveals the impact of chronic cigarette smoking on lung epithelial responses to influenza and hyperoxia. | Cha PC et al. | β | 2025 | β |
| Integrator loss leads to dsRNA formation that triggers the integrated stress response. | Baluapuri A et al. | β | 2025 | β |
| Interaction of methyl-CpG-binding protein 2 (MeCP2) with distinct enhancers in the mouse cortex. | Mishra GP et al. | β | 2025 | β |
| Interaction of TFAP2A with the Ku70/80 complex is crucial for HIF-dependent activation of hypoxia-inducible genes. | Kanoura A et al. | β | 2025 | β |
| Interplay and cooperation between GLI2 and master transcription factors promote progression of esophageal squamous cell carcinoma. | Liu YQ et al. | β | 2025 | β |
| Interplay of the Genetic Variants and Allele Specific Methylation in the Context of a Single Human Genome Study. | Voronina MD et al. | β | 2025 | β |
| Interspecific hybridization in Brassica species leads to changes in agronomic traits through the regulation of gene expression by chromatin accessibility and DNA methylation. | Quan C et al. | β | 2025 | β |
| Intrauterine hyperglycemia impairs mouse primordial germ cell development and fertility by sex-specific epigenetic reprogramming interference. | Cong J et al. | β | 2025 | β |
| Ints7 deficiency activates DNA damage response to elicit resurgence of endogenous retrovirus MERVL and anastasis of embryonic stem cells. | Shen Y et al. | β | 2025 | β |
| <i>Orthopedia</i> regulates melanocortin 4 receptor transcription and energy homeostasis. | Xu B et al. | β | 2025 | β |
| IRF7 orchestrates proinflammatory macrophage polarization and joint destruction in rheumatoid arthritis. | Liu H et al. | β | 2025 | β |
| IRX3 controls a SUMOylation-dependent differentiation switch in adipocyte precursor cells. | Bjune JI et al. | β | 2025 | β |
| Joint profiling of gene expression and chromatin accessibility in pancreatic lymph nodes and spleens in human type 1 diabetes. | Abedi M et al. | β | 2025 | β |
| JunB is required for CD8+ T cell responses to acute infections. | Sarkar S et al. | β | 2025 | β |
| JUNB O-GlcNAcylation-Mediated Promoter Accessibility of Metabolic Genes Modulates Distinct Epithelial Lineage in Pulmonary Fibrosis. | Bammert MT et al. | β | 2025 | β |
| JUND plays a genome-wide role in the quiescent to contractile switch in the pregnant human myometrium. | Khader N et al. | β | 2025 | β |
| K29-Linked Ubiquitination of Transcription Regulators Controls Cell Proliferation in the Unfolded Protein Response. | Zhang Q et al. | β | 2025 | β |
| KCTD10 is a sensor for co-directional transcription-replication conflicts. | Kloeber JA et al. | β | 2025 | β |
| KDM6B-dependent epigenetic programming of uterine fibroblasts in early pregnancy regulates parturition timing in mice. | McIntyre TI et al. | β | 2025 | β |
| KEGNI: knowledge graph enhanced framework for gene regulatory network inference. | Li P et al. | β | 2025 | β |
| KLF5 facilitates lung adenocarcinoma metastasis by regulating the epithelial-mesenchymal transition pathway through RHPN2. | Zhang T et al. | β | 2025 | β |
| KLF6-mediated recruitment of the p300 complex enhances H3K23su and cooperatively upregulates SEMA3C with FOSL2 to drive 5-FU resistance in colon cancer cells. | Zhang B et al. | β | 2025 | β |
| KnowYourCG: Facilitating base-level sparse methylome interpretation. | Goldberg DC et al. | β | 2025 | β |
| KrΓΌppel-like factor 5 remodels lipid metabolism in exercised skeletal muscle. | Schneider-Heieck K et al. | β | 2025 | β |
| Lack of caspase 8 directs neuronal progenitor-like reprogramming and small cell lung cancer progression. | Androulidaki A et al. | β | 2025 | β |
| Lactate regulates cell differentiation of erythroid progenitor cells via histone lactylation modification. | Yang Q et al. | β | 2025 | β |
| Lamin A/C protects chromatin accessibility during mechanical loading in human skeletal muscle. | Jabre S et al. | β | 2025 | β |
| LARP4-mediated hypertranslation drives T cell dysfunction in tumors. | Liu Y et al. | β | 2025 | β |
| LEDGF/p75 promotes transcriptional pausing through preventing SPT5 phosphorylation. | Guo C et al. | β | 2025 | β |
| LEUTX and OTX2 orchestrate totipotency-to-pluripotency transitions and heterogeneity in pEPSCs. | Wu L et al. | β | 2025 | β |
| LIN-39 is a neuron-specific developmental determinant of longevity in Caenorhabditis elegans with reduced insulin signaling. | KavΕ‘ek A et al. | β | 2025 | β |
| LKB1 inactivation promotes epigenetic remodeling-induced lineage plasticity and antiandrogen resistance in prostate cancer. | Li F et al. | β | 2025 | β |
| Local chromatin context informs transcriptional outcomes for the histone demethylase KDM5. | Yheskel M et al. | β | 2025 | β |
| Long-read sequencing reveals novel structural variation markers for key agronomic and quality traits of food-grade soybean. | Wang Z et al. | β | 2025 | β |
| Loss of function of the zinc finger homeobox 4 gene, ZFHX4, underlies a neurodevelopmental disorder. | PΓ©rez Baca MDR et al. | β | 2025 | β |
| Loss of SMARCA4 Leads to Intron Retention and Generation of Tumor-Associated Antigens in Small Cell Carcinoma of the Ovary, Hypercalcemic Type. | Raupach EA et al. | β | 2025 | β |
| Loss of STARD7 Triggers Metabolic Reprogramming and Cell Cycle Arrest in Breast Cancer. | Dondajewska E et al. | β | 2025 | β |
| LSD1 and CoREST2 Potentiate STAT3 Activity to Promote Enteroendocrine Cell Differentiation in Mucinous Colorectal Cancer. | Ladaika CA et al. | β | 2025 | β |
| <i>k</i>-mer manifold approximation and projection for visualizing DNA sequences. | Fu C et al. | β | 2025 | β |
| <i>TP53</i> missense-specific transcriptional plasticity drives resistance against cell cycle inhibitors in pancreatic cancer. | Urbach L et al. | β | 2025 | β |
| <i>Xanthomonas</i> coordinates type III-type II effector synergy by activating fruit-ripening pathway. | Phan TT et al. | β | 2025 | β |
| Lysosomes signal through the epigenome to regulate longevity across generations. | Zhang Q et al. | β | 2025 | β |
| Macrophage memory emerges from coordinated transcription factor and chromatin dynamics. | Wang AG et al. | β | 2025 | β |
| Maize COMPACT PLANT 3 regulates plant architecture and facilitates high-density planting. | Sheng H et al. | β | 2025 | β |
| Major-depressive-disorder-associated dysregulation of ZBTB7A in orbitofrontal cortex promotes astrocyte-mediated stress susceptibility. | Fulton SL et al. | β | 2025 | β |
| Major waves of H2A.Z incorporation during mouse oogenesis and preimplantation embryo development. | Fosslie M et al. | β | 2025 | β |
| Mammalian conservation of endogenous G-quadruplex reveals their associations with complex traits. | Zhang ZH et al. | β | 2025 | β |
| Mapping chromatin remodelling in glioblastoma identifies epigenetic regulation of key molecular pathways and novel druggable targets. | Vinel C et al. | β | 2025 | β |
| Mapping SET1B chromatin interactions with DamID using DamMapper, a comprehensive Snakemake workflow. | Wit N et al. | β | 2025 | β |
| Mapping the FOXA1 Interactome in ER+ Breast Cancer Cells Using Proximity Labeling Reveals Novel Interactions with the Orphan Nuclear Receptor NR2C2. | Plagens RN et al. | β | 2025 | β |
| Maternal vitamin D regulates the metabolic rearrangement of offspring CD4<sup>+</sup> T cells in response to intestinal inflammation. | Zhu B et al. | β | 2025 | β |
| MAZ regulates fetal hemoglobin repression by activating MYB transcription. | Lu D et al. | β | 2025 | β |
| Mechanosensitive genomic enhancers potentiate the cellular response to matrix stiffness. | Cosgrove BD et al. | β | 2025 | β |
| Melatonin and spermidine protect early mouse embryos from ethylparaben toxicity by restoring histone modifications and subcellular structures. | Wang YF et al. | β | 2025 | β |
| Metformin reduces the competitive advantage of Dnmt3a<sup>R878H</sup> HSPCs. | Hosseini M et al. | β | 2025 | β |
| Methylation aberrations and genomic instability synergistically drive the evolution of intrahepatic cholangiocarcinoma. | Li G et al. | β | 2025 | β |
| Microbial communities experienced during early development shape the host immune system and epigenome. | Tan AL et al. | β | 2025 | β |
| Microglia endotoxin tolerance is retained after enforced repopulation. | Medeiros-Furquim T et al. | β | 2025 | β |
| Microglial deficiency in the ATRX chromatin remodeler elicits a viral mimicry immune response that impacts neuronal function and behavior. | Shafiq S et al. | β | 2025 | β |
| Microproteins Simba1 and Simba2 activate Wingless signaling during the reactivation of neural stem cells in Drosophila. | Lin J et al. | β | 2025 | β |
| Mitochondria-derived nuclear ATP surge protects against confinement-induced proliferation defects. | Ghose R et al. | β | 2025 | β |
| Mitochondrial metabolic rewiring sensitizes mTORC1 inhibitor persister cells to cuproptosis. | Du H et al. | β | 2025 | β |
| Mitofusin 1 Drives Preimplantation Development by Enhancing Chromatin Incorporation of Histone H3.3. | Shi XY et al. | β | 2025 | β |
| MLL4 regulates postnatal palate growth and midpalatal suture development. | Lee JM et al. | β | 2025 | β |
| m<sup>6</sup>A deficiency impairs hypothalamic neurogenesis of feeding-related neurons in mice and human organoids and leads to adult obesity in mice. | Shen Y et al. | β | 2025 | β |
| Modeling the vertebrate regulatory sequence landscape by UUATAC-seq and deep learning. | Han X et al. | β | 2025 | β |
| Modulating immune cell fate and inflammation through CRISPR-mediated DNA methylation editing. | ValcΓ‘rcel G et al. | β | 2025 | β |
| Molecular insights into the role of desmin intermediate filament network in chromatin landscape, cardiomyocyte differentiation, and maturation. | Tsikitis M et al. | β | 2025 | β |
| Molecular regulation of whole genome DNA methylation in heat stress response of dairy cows. | Yang Y et al. | β | 2025 | β |
| Molecular structure of VEGFA polysaccharide protein and its regulation of monocyte infiltration and oxidative stress after myocardial infarction. | Huang Z et al. | β | 2025 | β |
| Mouse totipotent blastomere-like cells model embryogenesis from zygotic genome activation to post implantation. | Peng B et al. | β | 2025 | β |
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| Multidimensional OMICs reveal ARID1A orchestrated control of DNA damage, splicing, and cell cycle in normal-like and malignant urothelial cells. | SchlΓΆsser RM et al. | β | 2025 | β |
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| Multi-omic integration of single-cell data uncovers methylation profiles of super-enhancers in skeletal muscle stem cells. | Zeng A et al. | β | 2025 | β |
| Multiomic integration reveals subtype-specific predictors of neoadjuvant treatment response in breast cancer. | Mo Z et al. | β | 2025 | β |
| Multiomic Network Analysis Identifies Dysregulated Neurobiological Pathways in Opioid Addiction. | Sullivan KA et al. | β | 2025 | β |
| Multiomic QTL mapping reveals phenotypic complexity of GWAS loci and prioritizes putative causal variants. | Arthur TD et al. | β | 2025 | β |
| Multi-omics analyses identify mannose phosphate isomerase-centered hypoxia-induced angiogenesis signature in colorectal cancer. | Liu S et al. | β | 2025 | β |
| Multi-omics analyses reveal DjTcf4 critical for proper timing of differentiation in planarian regeneration. | Wang H et al. | β | 2025 | β |
| Multiβomics analysis identifies different molecular subtypes with unique outcomes in early-stage poorly differentiated lung adenocarcinoma. | Liu B et al. | β | 2025 | β |
| Multiomics Analysis of the Molecular Response to Glucocorticoids: Insights Into Shared Genetic Risk From Psychiatric to Medical Disorders. | Knauer-Arloth J et al. | β | 2025 | β |
| Multi-Omics Analysis Reveals Adaptation Strategies of Marine Diatom to Long-Term Ocean Warming: Resource Allocation Trade-Offs and Epigenetic Regulation. | Hong T et al. | β | 2025 | β |
| Multi-omics analysis reveals critical <i>cis</i>-regulatory roles of transposable elements in livestock genomes. | Wang C et al. | β | 2025 | β |
| Multi-omics analysis reveals PkNF-YA7a as a transcriptional activator that promotes glycerolipid biosynthesis in Pinus koraiensis seeds. | An Z et al. | β | 2025 | β |
| Multi-omics dissection of the genetic regulation underlying fatty acid composition in cattle. | Zhang T et al. | β | 2025 | β |
| Multi-omics integration analysis reveals the regulatory impact of CNVs for slaughter traits in cattle. | Wu J et al. | β | 2025 | β |
| Multi-omics integration identifies NK cell-mediated cytotoxicity as a therapeutic target in systemic lupus erythematosus. | Zhang J et al. | β | 2025 | β |
| Multiplex generation and single-cell analysis of structural variants in mammalian genomes. | Pinglay S et al. | β | 2025 | β |
| Mutant huntingtin induces neuronal apoptosis via derepressing the non-canonical poly(A) polymerase PAPD5. | Chen ZS et al. | β | 2025 | β |
| MyoD is essential in rhabdomyosarcoma by promoting survival through differentiation and CYLD. | Oles AR et al. | β | 2025 | β |
| N-alpha-acetyltransferase 40 modulates ecdysteroid action through chromatin accessibility changes near the promoters of 20-hydroxyecdysone response genes in Tribolium Castaneum TcA cells. | Arya SK et al. | β | 2025 | β |
| NanoTag is an improved method to map interactions between DNA and proteins not requiring IgG. | Dimitriu MA et al. | β | 2025 | β |
| Nat10 maintains the homeostasis of pluripotent and 2-cell-like states in mouse embryonic stem cells through mRNA cytidine acetylation. | Feng G et al. | β | 2025 | β |
| Near complete assembly of Drosophila melanogaster Canton S strain genome. | Liu YN et al. | β | 2025 | β |
| NetREm: Network Regression Embeddings reveal cell-type transcription factor coordination for gene regulation. | Khullar S et al. | β | 2025 | β |
| NKX2.2 and KLF4 cooperate to regulate Ξ±-cell identity. | Brooks EP et al. | β | 2025 | β |
| NKX2-5/LHX1 and UHRF1 Establishing a Positive Feedback Regulatory Circuitry Drives Esophageal Squamous Cell Carcinoma through Epigenetic Dysregulation. | Li X et al. | β | 2025 | β |
| Non-canonical roles of Keap1/Nrf2 in regulating quiescence and early activation in adult muscle stem cells. | Han L et al. | β | 2025 | β |
| Noncoding function of super enhancer derived <i>Cpox</i> pre-mRNA in modulating neighbouring gene expression and chromatin interactions. | Xie B et al. | β | 2025 | β |
| Nonproteolytic ubiquitination regulates chromatin occupancy by the NCoR/SMRT/HDAC3 corepressor complex in MCF-7 breast cancer cells. | Ferrero G et al. | β | 2025 | β |
| Notch dependent chromatin remodeling enables Gata3 binding and drives lineage specific CD8<sup>+</sup> TΒ cell function. | O'Hara J et al. | β | 2025 | β |
| Novel insights into the unique characterization of N6-methyladenosine RNA modification and regulating cold tolerance in winter Brassica rapa. | Ma L et al. | β | 2025 | β |
| NRT1.1B acts as an abscisic acid receptor in integrating compound environmental cues for plants. | Ma X et al. | β | 2025 | β |
| Nuclear FGF2 orchestrates phase separation-mediated rDNA chromatin architecture to control BMSCs cell fate. | Zhang H et al. | β | 2025 | β |
| Nuclear m<sup>6</sup>A modification regulates satellite transcription and chromosome segregation. | Huang C et al. | β | 2025 | β |
| Oncofetal reprogramming drives phenotypic plasticity in WNT-dependent colorectal cancer. | Mzoughi S et al. | β | 2025 | β |
| Oncometabolite D-2HG drives tumor metastasis and protumoral macrophage polarization by targeting FTO/m<sup>6</sup>A/ANGPTL4/integrin axis in triple-negative breast cancer. | Zhang S et al. | β | 2025 | β |
| Orchestration of leaf curvature by the SBP transcription factor SPL10-REVOLUTA module in Arabidopsis. | Xu P et al. | β | 2025 | β |
| OsWRKY53 dictates wound responses in rice through fine-tuning crosstalk between PEP and PSK-mediated signalling. | Harshith CY et al. | β | 2025 | β |
| p85Ξ² acts as a transcription cofactor and cooperates with BCLAF1 in the nucleus. | Wang P et al. | β | 2025 | β |
| PagBTB74 Negatively Regulates Secondary Wall Biosynthesis During Wood Formation in Populus albaβΓβPopulus glandulosa. | Yue J et al. | β | 2025 | β |
| Paired blood and brain tissue methylation biomarkers in focal cortical dysplasia. | Khurana I et al. | β | 2025 | β |
| Pangeneric genome analyses reveal the evolution and diversity of the orchid genus Dendrobium. | Li Y et al. | β | 2025 | β |
| Pan-tissue transcriptome analysis reveals sex-dimorphic human aging. | Wang S et al. | β | 2025 | β |
| PARP1 and PARG Are the Draft Horses for Polycomb-Trithorax Chromatin Regulator Machinery. | Bordet G et al. | β | 2025 | β |
| Particle Shape Modulates the Function of Adoptive Macrophage Transfers. | Kwan MMC et al. | β | 2025 | β |
| PAX3 Regulatory Signatures and Gene Targets in Melanoma Cells. | Moore SPG et al. | β | 2025 | β |
| Pax6 Binds to NF-ΞΊB DNA Motif and Regulates Genes Involved in NF-ΞΊB Activation in the Brains of LPS-Treated Mice. | Ghosh N et al. | β | 2025 | β |
| PAXIP1 is regulated by NRF1 and is a prognosisβrelated biomarker in hepatocellular carcinoma. | Cheng Q et al. | β | 2025 | β |
| Peripheral Blood DNA Methylation Changes in Response to <i>Centella asiatica</i> Treatment in Aged Mice. | Monestime O et al. | β | 2025 | β |
| Pioneer factor GATA6 promotes colorectal cancer through 3D genome regulation. | Lyu H et al. | β | 2025 | β |
| Polycomb repressive complexes 1 and 2 independently and dynamically regulate euchromatin during cerebellar neurodevelopment. | Parmar A et al. | β | 2025 | β |
| Post-replicative initial expression of PAX6 during neuroectoderm differentiation. | Hu S et al. | β | 2025 | β |
| PRC1-mediated H2A.Zub promotes gene expression by preventing H3.1K27me1 incorporation in Arabidopsis. | Baile F et al. | β | 2025 | β |
| Precise mapping of single-stranded DNA breaks by sequence-templated erroneous DNA polymerase end-labelling. | Wenson L et al. | β | 2025 | β |
| Prediction and validation based on scRNA-seq: ETS2 targets CEBPB to mediate osteoclast differentiation in osteoarthritis progression. | Xu Q et al. | β | 2025 | β |
| Pre-existing epigenetic state and differential NF-ΞΊB activation shape type 2 immune cell responses. | Guichard V et al. | β | 2025 | β |
| Preliminary Analysis of Placental DNA Methylation Profiles in Piglets with Extreme Birth Weight Variations. | Zhang Z et al. | β | 2025 | β |
| Prenatal nicotine exposure induces epigenetic alterations in the Notch signaling genes in the proximal colon in rats. | Dali O et al. | β | 2025 | β |
| Profiling of RUVBL2-Induced Transcriptome Alterations Highlights a Critical Role for Chromatin Remodeling in Ovarian Cancer. | Xue R et al. | β | 2025 | β |
| Proteogenomic reprogramming to a functional human blastomere-like stem cell state via a PARP-DUX4 regulatory axis. | Zimmerlin L et al. | β | 2025 | β |
| Proteomic analysis of urinary extracellular vesicles from patients with ADTKD-HNF1Ξ² identifies roles for cilia-related proteins and serpins. | Kahlman EJEM et al. | β | 2025 | β |
| Protocol for identifying genomic binding sites of mitotic bookmarkers in Drosophila neural stem cells and cultured mammalian cells. | Shen Y et al. | β | 2025 | β |
| Protocol for transcriptomic and epigenomic analyses of tip-like endothelial cells using scRNA-seq and ChIP-seq. | Funasaki S et al. | β | 2025 | β |
| RarΞ³-Foxa1 signaling promotes luminal identity in prostate progenitors and is disrupted in prostate cancer. | De Felice D et al. | β | 2025 | β |
| Recent evolution of the developing human intestine affects metabolic and barrier functions. | Yu Q et al. | β | 2025 | β |
| Regeneration alters open chromatin and <i>cis</i>-regulatory landscape of erythroid precursors. | Zhou Y et al. | β | 2025 | β |
| Regulation of meristem and hormone function revealed through analysis of directly-regulated SHOOT MERISTEMLESS target genes. | Lechon T et al. | β | 2025 | β |
| Regulation of transcriptional homeostasis by DNA methylation upon genome duplication in pak choi. | Ma M et al. | β | 2025 | β |
| Repairing a deleterious domestication variant in a floral regulator gene of tomato by base editing. | Glaus AN et al. | β | 2025 | β |
| Requirements for the neurodevelopmental disorder-associated gene ZNF292 in human cortical interneuron development and function. | Kaushik K et al. | β | 2025 | β |
| Reshaping epigenomic landscapes facilitated bread wheat speciation. | Zhang Z et al. | β | 2025 | β |
| Resistance of estrogen receptor function to BET bromodomain inhibition is mediated by transcriptional coactivator cooperativity. | Zhang S et al. | β | 2025 | β |
| REST/NRSF Preserves muscle stem cell identity by repressing alternate cell fate. | Sahinyan K et al. | β | 2025 | β |
| Restoration of LAT activity improves CAR TΒ cell sensitivity and persistence in response to antigen-low acute lymphoblastic leukemia. | Pham-Danis C et al. | β | 2025 | β |
| Restoration of mitochondrial function alleviates trigeminal neuropathic pain in mice. | Yang J et al. | β | 2025 | β |
| Revealing Cell-Free Mitochondrial DNA Breakage Patterns as Novel Biomarkers for Sepsis. | Liao H et al. | β | 2025 | β |
| Rewired m6A of promoter antisense RNAs in Alzheimer's disease regulates neuronal genes in 3D nucleome. | Hu B et al. | β | 2025 | β |
| Rewiring of LEUNIG_HOMOLOG interaction networks marks regulatory shifts from meristem to organ growth in Arabidopsis flowers. | Vega-LeΓ³n R et al. | β | 2025 | β |
| Rhabdomyosarcoma fusion oncoprotein initially pioneers a neural signature in vivo. | Kucinski J et al. | β | 2025 | β |
| Ribosome dysregulation and intervention in age-related infertility. | Li J et al. | β | 2025 | β |
| RIF1 integrates DNA repair and transcriptional requirements during the establishment of humoral immune responses. | Kabrani E et al. | β | 2025 | β |
| Ripening-induced defence signalling in Botrytis cinerea-infected tomato fruits involves activation of ERF.F4 by a MYC2-NOR/RIN protein complex. | Li S et al. | β | 2025 | β |
| RNA Pol-II transcripts in nucleolar associated domains of cancer cell nucleoli. | Chowdhury SR et al. | β | 2025 | β |
| Satb1 directs the differentiation of T<sub>H</sub>17 cells through suppression of IL-2 expression. | KΓΆhne M et al. | β | 2025 | β |
| scCirclehunter delineates ecDNA-containing cells using single-cell ATAC-seq, with a focus on glioblastoma. | Jiang R et al. | β | 2025 | β |
| scFFPE-ATAC enables high-throughput single cell chromatin accessibility profiling in formalin-fixed paraffin-embedded samples. | Yadav RP et al. | β | 2025 | β |
| SCoTCH-seq reveals that 5-hydroxymethylcytosine encodes regulatory information across DNA strands. | Hardwick JS et al. | β | 2025 | β |
| Screening and functional verification of vernalization related transcription factor BrcFES1 in pak choi (Brassica rapa ssp. chinensis Makino). | Hou R et al. | β | 2025 | β |
| scRNA-seq and scATAC-seq analyses highlight the role of TNF signaling pathway in chronic obstructive pulmonary disease model mice. | Zhang Q et al. | β | 2025 | β |
| Selection for Tameness in Red Junglefowl Recapitulates Genetic Loci Associated With Domestication-Related Brain Composition. | Guerrero-Bosagna C et al. | β | 2025 | β |
| Selective identification of epigenetic regulators at methylated genomic sites by SelectID. | Qian W et al. | β | 2025 | β |
| Separation-of-function mutants reveal the NF-ΞΊB-independent involvement of IΞΊBΞ± in the regulation of intestinal stemness. | Γlvarez-Villanueva D et al. | β | 2025 | β |
| SEPAR enables spatial metagene discovery and associated molecular pattern characterization in spatial transcriptomics and multi-omics datasets. | Zhang L et al. | β | 2025 | β |
| SETD1A regulates psychiatric gene networks involved in genomic stability and synaptic function in rare and sporadic schizophrenia. | Sawada T et al. | β | 2025 | β |
| SETD6 mediates selective interaction and genomic occupancy of BRD4 and MITF in melanoma cells. | Biton TE et al. | β | 2025 | β |
| SETDB1 ensures the continuity of embryonic to adult neural stem cells through metabolic alterations in the dentate gyrus. | Huang Y et al. | β | 2025 | β |
| Sex-Specific Methylomic and Transcriptomic Responses of the Avian Pineal Gland to Unpredictable Illumination Patterns. | PΓ©rtille F et al. | β | 2025 | β |
| Shared rare genetic variants in multiplex autism families suggest a social memory gene under selection. | Lee KS et al. | β | 2025 | β |
| Shoring up the base: The development and regulation of cortical sclerenchyma in grass nodal roots. | McCahill IW et al. | β | 2025 | β |
| Short-term starvation inhibits CD36 N-glycosylation and downregulates USP7 UFMylation to alleviate RBPJ-maintained T cell exhaustion in liver cancer. | Pan B et al. | β | 2025 | β |
| Single-cell multiomic analysis revealed the differentiation, localization, and heterogeneity of IL10+ Foxp3- follicular T cells in humans. | Fujioka S et al. | β | 2025 | β |
| Single-cell multi-omics analysis reveals cancer regulatory elements of transcriptional programs and clinical implications. | Tang X et al. | β | 2025 | β |
| Single-cell RNA-seq identifies protracted mouse germline X chromosome reactivation dynamics directed by a PRC2-dependent mechanism. | Liu Y et al. | β | 2025 | β |
| Single-nucleus CUT&RUN elucidates the function of intrinsic and genomics-driven epigenetic heterogeneity in head and neck cancer progression. | Womersley HJ et al. | β | 2025 | β |
| Single-nucleus multiomics reveals the disrupted regulatory programs in three brain regions of sporadic early-onset Alzheimer's disease. | Liu A et al. | β | 2025 | β |
| Single-nucleus multiomics reveals the gene regulatory networks underlying sex determination of murine primordial germ cells. | Alexander AK et al. | β | 2025 | β |
| Skeletal muscle-specific Bambi deletion induces hypertrophy and oxidative switching coupling with adipocyte thermogenesis against metabolic disorders. | Yao X et al. | β | 2025 | β |
| Slc22a17 governs postnatal neurogenesis by maintaining the iron homeostasis in hippocampus. | Tao L et al. | β | 2025 | β |
| SMAD4 induces opposite effects on metastatic growth from pancreatic tumors depending on the organ of residence. | Tsanov KM et al. | β | 2025 | β |
| Sox17 and Erg synergistically activate endothelial cell fate in reprogramming fibroblasts. | Farber G et al. | β | 2025 | β |
| SP140 represses specific loci by recruiting polycomb repressive complex 2 and NuRD complex. | Tamburri S et al. | β | 2025 | β |
| Spatial regulation of CD8<sup>+</sup> T cells at the HLA-E-NKG2A axis drives HIV persistence in lymph node B cell follicles. | Papadopoulos AO et al. | β | 2025 | β |
| Specific sDMA modifications on the RGG/RG motif of METTL14 regulate its function in AML. | Zhong Y et al. | β | 2025 | β |
| Spike protein-induced VSIR-ISX signaling disrupts metabolic homeostasis and promotes COVID-19-related immune dysfunction. | Wang LT et al. | β | 2025 | β |
| SPOROCYTELESS/NOZZLE cooperates with MADS-domain transcription factors to regulate an auxin-dependent network controlling Megaspore-Mother-Cell differentiation. | Cavalleri A et al. | β | 2025 | β |
| Staphylococcus aureus biofilm-associated component PNAG stimulates the secretion of the immunomodulatory chemokine CXCL10 via Dectin-1 signaling. | Gheitasi R et al. | β | 2025 | β |
| Steroid-Modulated Transcription Synergistically Forms DNA Double-Strand Breaks With Topoisomerase II Inhibitor. | Zhao Y et al. | β | 2025 | β |
| Structural variation detection and association analysis of whole-genome-sequence data from 16,543 Alzheimer's disease sequencing project subjects. | Wang H et al. | β | 2025 | β |
| Structure of the nucleosome-bound human BCL7A. | Martin F et al. | β | 2025 | β |
| Subgenome Dominance in Allotetraploid Actinidia valvata Regulates RNA m<sup>6</sup>A Modification for Waterlogging Tolerance. | Hu X et al. | β | 2025 | β |
| Succinate preserves CD8<sup>+</sup> T cell fitness to augment antitumor immunity. | Ma K et al. | β | 2025 | β |
| SUCLG1 deficiency-induced histone succinylation impairs oncogene expression in acute myeloid leukemia. | Gao M et al. | β | 2025 | β |
| Sustained and specific multiplexed immune checkpoint modulation in CAR T cells induced by targeted epigenome editing. | Roman Azcona MS et al. | β | 2025 | β |
| SUV39H1 Regulates KLF4 and Chromatin Remodeling in Smooth Muscle Cell Phenotypic Plasticity. | Chatterjee P et al. | β | 2025 | β |
| Synergistic function of RNA modifications in <i>Arabidopsis</i> and rice. | Ma A et al. | β | 2025 | β |
| Systemic genome-epigenome analysis captures a lineage-specific super-enhancer for MYB in gastrointestinal adenocarcinoma. | Li F et al. | β | 2025 | β |
| Targeting ALDH16A1 mediated thioredoxin lysosomal degradation to enhance ferroptosis susceptibility in SMARCA4-deficient NSCLC. | Bi G et al. | β | 2025 | β |
| Targeting BnNAC038 improves drought tolerance with low yield penalty in Brassica napus. | Chen Y et al. | β | 2025 | β |
| Targeting DDX3X suppresses progression of KRAS-driven lung cancer by disrupting antioxidative homeostasis and inducing ferroptosis. | Dian M et al. | β | 2025 | β |
| Targeting GRPR for sex hormone-dependent cancer after loss of E-cadherin. | Raymond JH et al. | β | 2025 | β |
| Targeting TET3 suppresses group 3 medulloblastoma stemness and progression via impairing hypomethylation of Otx2 super-enhancer. | Chen X et al. | β | 2025 | β |
| TBP bookmarks and preserves neural stem cell fate memory by orchestrating local chromatin architecture. | Shen Y et al. | β | 2025 | β |
| Tbx1 stabilizes differentiation of the cardiopharyngeal mesoderm and drives morphogenesis in the pharyngeal apparatus. | Lanzetta O et al. | β | 2025 | β |
| TBX5 and CHD4 Coordinately Activate Atrial Cardiomyocyte Genes to Maintain Cardiac Rhythm Homeostasis. | Sweat ME et al. | β | 2025 | β |
| Temporally discordant chromatin accessibility and DNA demethylation define short- and long-term enhancer regulation during cell fate specification. | Guerin LN et al. | β | 2025 | β |
| Temporal regulation of gene expression during auxin-triggered crown root formation in barley: an integrated approach. | KoΕΓnkovΓ‘ N et al. | β | 2025 | β |
| Temporal transcriptomics reveal crucial networks underlying jasmonate-mediated diurnal floret opening and closure in rice. | Zhang R et al. | β | 2025 | β |
| TET3 protects the <i>Dlk1-Dio3</i> imprinted locus from DNA hypomethylation during adult NSC reprogramming. | LΓ‘zaro-Carot L et al. | β | 2025 | β |
| The chromatin accessibility landscape during early maize seed development. | Zheng GM et al. | β | 2025 | β |
| The chromatin accessibility landscape of mouse oocytes during configuration transition. | Zhu S et al. | β | 2025 | β |
| The chromatin reader Dido3 is a regulator of the gene network that controls B cell differentiation. | Del Burgo FG et al. | β | 2025 | β |
| The Condensin II complex regulates essential gene expression programs during erythropoiesis. | Abid D et al. | β | 2025 | β |
| The DNA N6-adenine methylation target gene GhMAF1 promotes fiber initiation at the base of Gossypium ovules. | Pei Y et al. | β | 2025 | β |
| The Drosophila histone variant H2Av facilitates Notch signaling activity in a two-tier regulatory fashion. | Chen Y et al. | β | 2025 | β |
| The dynamic epigenetic atlas and its effects on instability of starch and seed storage protein quality traits in wheat (<i>Triticum aestivum</i> L.). | Wang Y et al. | β | 2025 | β |
| The Epigenetic Reader PHF23 Is Required for Embryonic Neurogenesis. | Wen Y et al. | β | 2025 | β |
| The ESCRT protein CHMP5 promotes T cell leukemia by enabling BRD4-p300-dependent transcription. | Umphred-Wilson K et al. | β | 2025 | β |
| The ETHYLENE RESPONSE FACTOR6-GRETCHEN HAGEN3.5 module regulates rooting and heat tolerance in Dimocarpus longan. | Zhang X et al. | β | 2025 | β |
| The G-quadruplex experimental drug QN-302 impairs liposarcoma cell growth by inhibiting MDM2 expression and restoring p53 levels. | Tosoni B et al. | β | 2025 | β |
| The GR-LEDGF/p75-HSP27 Axis Contributes to Cross-Resistance Between Enzalutamide and Docetaxel in Prostate Cancer. | Ochoa PT et al. | β | 2025 | β |
| The H3K27me3 histone mark correlates with repression of colour and aroma development post-harvest in strawberry fruit. | Baldwin A et al. | β | 2025 | β |
| The heat shock factor HSFB1 coordinates plant growth and drought tolerance in Arabidopsis. | Zheng L et al. | β | 2025 | β |
| The Hira complex regulates Gli3R-dependent transcription in Hedgehog signaling and medulloblastoma cell growth and migration. | SkarΕΌyΕska W et al. | β | 2025 | β |
| The Immunomechanical Checkpoint PYK2 Governs Monocyte-to-Macrophage Differentiation in Pancreatic Cancer. | Xie W et al. | β | 2025 | β |
| The long noncoding RNA VIVIpary promotes seed dormancy release and pre-harvest sprouting through chromatin remodeling in rice. | Yang L et al. | β | 2025 | β |
| The MADS-Box Transcription Factor CaRIN Positively Regulates Chlorophyll Degradation During Pepper (<i>Capsicum annuum</i> L.) Fruit Ripening by Repressing the Expression of <i>CaLhcb-P4</i>. | Song Y et al. | β | 2025 | β |
| The microcephaly-associated transcriptional regulator AUTS2 cooperates with Polycomb complex PRC2 to produce upper-layer neurons in mice. | Shimaoka K et al. | β | 2025 | β |
| The NONO protein regulates nonclassical DNA structure: Effects on circadian genes and DNA damage. | Moriggi E et al. | β | 2025 | β |
| The nucleosome remodeling and deacetylase-SWItch/sucrose non-fermentable antagonism regulates the coordinated activation of epithelial-to-mesenchymal transition and inflammation in oral cancer. | Stabile R et al. | β | 2025 | β |
| The pan-cancer mutational landscape of MLL3 and its impact on prognosis and immunochemotherapy. | Liu X et al. | β | 2025 | β |
| The pioneer transcription factor Zelda controls the exit from regeneration and restoration of patterning in <i>Drosophila</i>. | Bose A et al. | β | 2025 | β |
| The repressor Capicua is a barrier to lung tumor development driven by Kras/Trp53 mutations. | Ballesteros-GonzΓ‘lez I et al. | β | 2025 | β |
| The role of DNA content in shaping chromatin architecture and gene expression. | BarragΓ‘n-Rosillo AC et al. | β | 2025 | β |
| The role of FOXK2-FBXO32 in breast cancer tumorigenesis: Insights into ribosome-associated pathways. | Liao F et al. | β | 2025 | β |
| The sex-biased chromatin modifier SMC1A promotes autoimmunity by shaping inflammatory pathways in patients with SLE. | Kosmara D et al. | β | 2025 | β |
| The SWI/SNF-related protein SMARCA3 is a histone H3K23 ubiquitin ligase that regulates H3K9me3 in cancer. | Akano I et al. | β | 2025 | β |
| The TET3/GATA6 Axis Drives Lipid Metabolism and Therapeutic Vulnerabilities in Pancreatic Ductal Adenocarcinoma. | Liu S et al. | β | 2025 | β |
| The transcription factor BnaWRKY75 enhances resistance to the necrotrophic pathogen Sclerotinia sclerotiorum by promoting salicylic acid biosynthesis in oilseed rape. | Liu D et al. | β | 2025 | β |
| The transcription factor GABPA is a master regulator of naive pluripotency. | Zhou C et al. | β | 2025 | β |
| The transcription factor LpWRKY65 enhances embryogenic capacity through reactive oxygen species scavenging during somatic embryogenesis of larch. | Chen X et al. | β | 2025 | β |
| The transcription factor TaWRKY27 confers enhanced stripe rust susceptibility by facilitating auxin accumulation in wheat. | Yao M et al. | β | 2025 | β |
| Tissue-specific CLOCK isoforms modulate circadian feedback loops to govern reproductive fitness inΒ Drosophila. | Wang Y et al. | β | 2025 | β |
| TLR2 supports Ξ³Ξ΄ T cell IL-17A response to ocular surface commensals by metabolic reprogramming. | Zhu W et al. | β | 2025 | β |
| Tomato flowering depends on overlapping functions of AP1/FUL-like genes in reproductive meristem specification. | Jiang X et al. | β | 2025 | β |
| Tracing and Capturing the Epiblast Pluripotency of Sheep Preimplantation Embryos. | Zhang J et al. | β | 2025 | β |
| Tracking the genome-wide occupancy of Arabidopsis LEAFY COTYLEDON1 in endosperm development. | Song J et al. | β | 2025 | β |
| TRAF3 is critical for initial T follicular helper cell specification via coordination of the IL-6R/IL-2R-BCL6 signaling nexus. | Shao P et al. | β | 2025 | β |
| Traffic Jam activates the Flamenco piRNA cluster locus and the Piwi pathway to ensure transposon silencing and Drosophila fertility. | Rivera AJ et al. | β | 2025 | β |
| Transcriptional and epigenetic rewiring by the NUP98::KDM5A fusion oncoprotein directly activates CDK12. | Troester S et al. | β | 2025 | β |
| Transcriptional dynamics and chromatin accessibility in the regulation of shade-responsive genes in Arabidopsis. | PauliΕ‘iΔ S et al. | β | 2025 | β |
| Transcriptional landscape and chromatin accessibility reveal key regulators for liver regenerative initiation and organoid formation. | Lian J et al. | β | 2025 | β |
| Transcriptional regulation of the piRNA pathway by Ovo in animal ovarian germ cells. | Alizada A et al. | β | 2025 | β |
| Transcription factor binding divergence drives transcriptional and phenotypic variation in maize. | Galli M et al. | β | 2025 | β |
| Transcription factor MAFA regulates muscle growth via calcium ion channels and receptor tyrosine kinase activation. | Lai C et al. | β | 2025 | β |
| Transcriptome analysis reveals PTBP1 as a key regulator of circRNA biogenesis. | Wang M et al. | β | 2025 | β |
| Transcriptome-wide regulation of folate on neural mRNA m<sup>6</sup>A methylome via carbon metabolism in Drosophila and mammals. | Liu A et al. | β | 2025 | β |
| Transcriptome-wide study of mRNAs modified by m<sup>6</sup>A RNA methylation in the testis development of dairy goats. | Ren X et al. | β | 2025 | β |
| Transcriptomic landscape and chromatin accessibility uncover pivotal regulators driving programmed larval-larval molting in the domesticated silkworm. | Wang Y et al. | β | 2025 | β |
| Transferrin receptor 1 nuclear translocation facilitates tumor progression via p53-mediated chromatin interactions and genome-wide alterations. | Hou Y et al. | β | 2025 | β |
| Transgenerational effects of in ovo stimulation with synbiotic and choline on gonadal tissue across three generations. | Ibrahim M et al. | β | 2025 | β |
| Transient chemical-mediated epigenetic modulation confers unrestricted lineage potential on human primed pluripotent stem cells. | Chen S et al. | β | 2025 | β |
| Transposable element 5mC methylation state of blood cells predicts age and disease. | Morandini F et al. | β | 2025 | β |
| TRAPT: a multi-stage fused deep learning framework for predicting transcriptional regulators based on large-scale epigenomic data. | Zhang G et al. | β | 2025 | β |
| TRIM33 loss reduces androgen receptor transcriptional output and H2BK120 ubiquitination. | Eickhoff N et al. | β | 2025 | β |
| Trithorax regulates long-term memory in Drosophila through epigenetic maintenance of mushroom body metabolic state and translation capacity. | Raun N et al. | β | 2025 | β |
| Two MYB transcription factors interact to inhibit the expression of cell wall metabolism and starch degradation genes in banana. | Luo TT et al. | β | 2025 | β |
| Unconventional receptor functions and location-biased signaling of the lactate GPCR in the nucleus. | Mohammad Nezhady MA et al. | β | 2025 | β |
| Uncovering the chromatin-mediated transcriptional regulatory network governing cold stress responses in fish immune cells. | Jiao H et al. | β | 2025 | β |
| Uncovering the regulatory landscape of early human B cell lymphopoiesis and its implications in the pathogenesis of B-ALL. | Planell N et al. | β | 2025 | β |
| Uncovering the transcriptional regulatory network underlying selenium tolerance in maize seedlings. | Wang R et al. | β | 2025 | β |
| Uncovering the whole genome silencers of human cells via Ss-STARR-seq. | Zhu X et al. | β | 2025 | β |
| Unlocking hematopoietic stem cell potential: integrative computational approaches for genomic and transcriptomic analysis. | Raghav PK et al. | β | 2025 | β |
| Unlocking the Puzzle of Mammalian Transfection: The Role of the RNA-sensing-Mediated Interferon Response in the Cellular Defense Against Foreign DNA Intrusion. | Li X et al. | β | 2025 | β |
| Untargeted CUT&Tag reads are enriched at accessible chromatin and restrict identification of potential G4-forming sequences in G4-targeted CUT&Tag experiments. | Thompson MD et al. | β | 2025 | β |
| Unveiling IRF4-steered regulation of context-dependent effector programs in CD4<sup>+</sup> T cells under Th17- and Treg-skewing conditions. | Gabele A et al. | β | 2025 | β |
| Unveiling Tissue-Specific RNA Landscapes in Mouse Organs During Fasting and Feeding Using Nanopore Direct RNA Sequencing. | Jiang C et al. | β | 2025 | β |
| VaEIN3.1-VaERF057-VaFBA1 Module Positively Regulates Cold Tolerance by Accumulating Soluble Sugar in Grapevine. | Zhou H et al. | β | 2025 | β |
| VRN2-PRC2 facilitates light-triggered repression of PIF signaling to coordinate growth in Arabidopsis. | Osborne R et al. | β | 2025 | β |
| WASH regulates B cell signaling, metabolism and function through STAT1. | Jiang P et al. | β | 2025 | β |
| WDR5 serves in co-activation and influences genome targeting of KLF3. | Yang L et al. | β | 2025 | β |
| Widespread association of Polycomb complex-deposited histone H2A monoubiquitylation with enhancers and neuronal gene regulation. | MacGillivray K et al. | β | 2025 | β |
| YTHDF2 alleviates the radioresistance of rectal cancer cells by targeting methylated MYC. | Fang Y et al. | β | 2025 | β |
| ZAD mediates chromatin binding and insulator activity of Drosophila Pita and can be replaced with the human ZFP276 ZAD-like domain. | Vasileva Y et al. | β | 2025 | β |
| ZAR1 and ZAR2 orchestrate the dynamics of maternal mRNA polyadenylation during mouse oocyte development. | Wu YK et al. | β | 2025 | β |
| ZBTB16/PLZF regulates juvenile spermatogonial stem cell development through an extensive transcription factor poising network. | Yi C et al. | β | 2025 | β |
| ZBTB17/MIZ1 promotes peroxisome biogenesis by transcriptional regulation of PEX13. | Liu H et al. | β | 2025 | β |
| ZBTB24 is a conserved multifaceted transcription factor at genes and centromeres that governs the DNA methylation state and expression of satellite repeats. | Grillo G et al. | β | 2025 | β |
| Zinc finger homeobox-3 (ZFHX3) orchestrates genome-wide daily gene expression in the suprachiasmatic nucleus. | Bafna A et al. | β | 2025 | β |
| ZmHB53, a Maize Homeodomain-Leucine Zipper I Transcription Factor Family Gene, Contributes to Abscisic Acid Sensitivity and Confers Seedling Drought Tolerance by Promoting the Activity of ZmPYL4. | Zhong Y et al. | β | 2025 | β |
| ZmMYB92 modulates secondary wall cellulose synthesis in maize. | Zhang X et al. | β | 2025 | β |
| Zyxin directly binds to chromosomal DNA and is linked with mitochondrial integrity and apoptosis. | Siddiqui M et al. | β | 2025 | β |
| 3D genome topology distinguishes molecular subgroups of medulloblastoma. | Lee JJY et al. | β | 2024 | β |
| A bioinformatic approach for the prediction and functional classification of Toxoplasma gondii long non-coding RNAs. | Vanagas L et al. | β | 2024 | β |
| A comparative analysis of planarian genomes reveals regulatory conservation in the face of rapid structural divergence. | IvankoviΔ M et al. | β | 2024 | β |
| Adenine base editors induce off-target structure variations in mouse embryos and primary human T cells. | Wu L et al. | β | 2024 | β |
| Adipose tissue retains an epigenetic memory of obesity after weight loss. | Hinte LC et al. | β | 2024 | β |
| A dynamic regulome of shoot-apical-meristem-related homeobox transcription factors modulates plant architecture in maize. | Luo Z et al. | β | 2024 | β |
| A latent Axin2<sup>+</sup>/Scx<sup>+</sup> progenitor pool is the central organizer of tendon healing. | Grinstein M et al. | β | 2024 | β |
| Alcohol Use Disorder-Associated DNA Methylation in the Nucleus Accumbens and Dorsolateral Prefrontal Cortex. | White JD et al. | β | 2024 | β |
| Altered m6A RNA methylation profiles in depression implicate the dysregulation of discrete cellular functions in males and females. | Mitsuhashi H et al. | β | 2024 | β |
| A multi-regional human brain atlas of chromatin accessibility and gene expression facilitates promoter-isoform resolution genetic fine-mapping. | Dong P et al. | β | 2024 | β |
| An AI Agent for Fully Automated Multi-Omic Analyses. | Zhou J et al. | β | 2024 | β |
| An anciently diverged family of RNA binding proteins maintain correct splicing of a class of ultra-long exons through cryptic splice site repression. | Siachisumo C et al. | β | 2024 | β |
| An Atlas of Accessible Chromatin in Advanced Prostate Cancer Reveals the Epigenetic Evolution during Tumor Progression. | Shrestha R et al. | β | 2024 | β |
| A negatively charged region within carboxy-terminal domain maintains proper CTCF DNA binding. | Liu L et al. | β | 2024 | β |
| Angiotensin receptor blockers modulate the lupus CD4+ T cell epigenome characterized by TNF family-linked signaling. | Hart AP et al. | β | 2024 | β |
| A novel approach for in vivo DNA footprinting using short double-stranded cell-free DNA from plasma. | MΓΌller J et al. | β | 2024 | β |
| Anti-gene oligonucleotide clamps invade dsDNA and downregulate <i>huntingtin</i> expression. | Umek T et al. | β | 2024 | β |
| Antiviral innate immune memory in alveolar macrophages following SARS-CoV-2 infection ameliorates secondary influenza A virus disease. | Lercher A et al. | β | 2024 | β |
| A regulatory network involving calmodulin controls phytosulfokine peptide processing during drought-induced flower abscission. | Wang S et al. | β | 2024 | β |
| Astrocyte allocation during brain development is controlled by Tcf4-mediated fate restriction. | Zhang Y et al. | β | 2024 | β |
| A transcriptional regulatory mechanism of genes in the tricarboxylic acid cycle in the heart. | Veera S et al. | β | 2024 | β |
| A transcription network underlies the dual genomic coordination of mitochondrial biogenesis. | Zhang F et al. | β | 2024 | β |
| Auto-expansion of <i>inΒ vivo</i> HDAd-transduced hematopoietic stem cells by constitutive expression of tHMGA2. | Wang H et al. | β | 2024 | β |
| Azacytidine treatment affects the methylation pattern of genomic and cell-free DNA in uveal melanoma cell lines. | Ferrier ST et al. | β | 2024 | β |
| Baf155 controls hematopoietic differentiation and regeneration through chromatin priming. | Wu J et al. | β | 2024 | β |
| CDK9 inhibition inhibits multiple oncogenic transcriptional and epigenetic pathways in prostate cancer. | Rahman R et al. | β | 2024 | β |
| Century-old chromatin architecture revealed in formalin-fixed vertebrates. | Hahn EE et al. | β | 2024 | β |
| CEP112 coordinates translational regulation of essential fertility genes during spermiogenesis through phase separation in humans and mice. | Zhang X et al. | β | 2024 | β |
| Changes in Gut Microbial Composition and DNA Methylation in Obese Patients with NAFLD After Bariatric Surgery. | Agodi A et al. | β | 2024 | β |
| CHD2 Regulates Neuron-Glioma Interactions in Pediatric Glioma. | Zhang X et al. | β | 2024 | β |
| Clonal evolution of the 3D chromatin landscape in patients with relapsed pediatric B-cell acute lymphoblastic leukemia. | Narang S et al. | β | 2024 | β |
| Clusters of lineage-specific genes are anchored by ZNF274 in repressive perinucleolar compartments. | Begnis M et al. | β | 2024 | β |
| Comparative single-cell analyses identify shared and divergent features of human and mouse kidney development. | Kim S et al. | β | 2024 | β |
| Comparative time-series multi-omics analyses suggest H1.2 involvement in anoxic adaptation and cancer resistance. | Du J et al. | β | 2024 | β |
| Comprehensive multi-tissue epigenome atlas in sheep: A resource for complex traits, domestication, and breeding. | Zhang D et al. | β | 2024 | β |
| Comprehensive Predictions of Mef2-Mediated Chromatin Loops, Which May Inhibit Ubx Binding by Blocking Low-Affinity Binding Sites. | Domsch K | β | 2024 | β |
| Cooperative role of LSD1 and CHD7 in regulating differentiation of mouse embryonic stem cells. | Malla S et al. | β | 2024 | β |
| Cross-disorder and disease-specific pathways in dementia revealed by single-cell genomics. | Rexach JE et al. | β | 2024 | β |
| DEAD-box RNA helicase 10 is required for 18S rRNA maturation by controlling the release of U3 snoRNA from pre-rRNA in embryonic stem cells. | Wang X et al. | β | 2024 | β |
| Deciphering the Landscape of GATA-Mediated Transcriptional Regulation in Gastric Cancer. | Begolli R et al. | β | 2024 | β |
| Decoding aging in the heart via single cell dual omics of non-cardiomyocytes. | Song Y et al. | β | 2024 | β |
| Decoding epigenetic markers: implications of traits and genes through DNA methylation in resilience and susceptibility to mastitis in dairy cows. | Bouzeraa L et al. | β | 2024 | β |
| Developmental DNA demethylation is a determinant of neural stem cell identity and gliogenic competence. | MacArthur IC et al. | β | 2024 | β |
| Differential chromatin accessibility and Gene Expression Associated with Backfat Deposition in pigs. | Zhang Z et al. | β | 2024 | β |
| Differential chromatin accessibility and transcriptional dynamics define breast cancer subtypes and their lineages. | Iglesia MD et al. | β | 2024 | β |
| Direct targets of MEF2C are enriched for genes associated with schizophrenia and cognitive function and are involved in neuron development and mitochondrial function. | Ali D et al. | β | 2024 | β |
| Distinct melanocyte subpopulations defined by stochastic expression of proliferation or maturation programs enable a rapid and sustainable pigmentation response. | Aggarwal A et al. | β | 2024 | β |
| DNA methylation controls stemness of astrocytes in health and ischaemia. | Kremer LPM et al. | β | 2024 | β |
| DNA methylation stability in cardiac tissues kept at different temperatures and time intervals. | Poggiali B et al. | β | 2024 | β |
| DRCTdb: disease-related cell type analysis to decode cell type effect and underlying regulatory mechanisms. | Kong Y et al. | β | 2024 | β |
| Drought-responsive dynamics of H3K9ac-marked 3D chromatin interactions are integrated by OsbZIP23-associated super-enhancer-like promoter regions in rice. | Chang Y et al. | β | 2024 | β |
| Dual function of PHF16 in reinstating homeostasis of murine intestinal epithelium after crypt regeneration. | Ahn JY et al. | β | 2024 | β |
| Dual targeting of histone deacetylases and MYC as potential treatment strategy for H3-K27M pediatric gliomas. | Algranati D et al. | β | 2024 | β |
| Dynamic alternations of three-dimensional chromatin architecture contribute to phenotypic characteristics of breast muscle in chicken. | Wang Z et al. | β | 2024 | β |
| Epigenetic characterization of adult rhesus monkey spermatogonial stem cells identifies key regulators of stem cell homeostasis. | Bi R et al. | β | 2024 | β |
| Epigenetic insights into GABAergic development in Dravet Syndrome iPSC and therapeutic implications. | Schuster J et al. | β | 2024 | β |
| Epigenetic landscape of intestinal cell line HT29 cocultured with <i>Lacticaseibacillus</i>. | Sinha A et al. | β | 2024 | β |
| Epigenetic memory of radiotherapy in dermal fibroblasts impairs wound repair capacity in cancer survivors. | Bian X et al. | β | 2024 | β |
| Epigenetic programming of host lipid metabolism associated with resistance to TST/IGRA conversion after exposure to <i>Mycobacterium tuberculosis</i>. | Dill-McFarland KA et al. | β | 2024 | β |
| Epigenetic regulation of cell state by H2AFY governs immunogenicity in high-risk neuroblastoma. | Nagarajan D et al. | β | 2024 | β |
| Epigenetic reprogramming driving successful and failed repair in acute kidney injury. | Muto Y et al. | β | 2024 | β |
| Epigenome-wide impact of MAT2A sustains the androgen-indifferent state and confers synthetic vulnerability in ERG fusion-positive prostate cancer. | Cacciatore A et al. | β | 2024 | β |
| Epigenomic and 3D genomic mapping reveals developmental dynamics and subgenomic asymmetry of transcriptional regulatory architecture in allotetraploid cotton. | Huang X et al. | β | 2024 | β |
| Epithelial NSD2 maintains FMO-mediated taurine biosynthesis to prevent intestinal barrier disruption. | Xu Y et al. | β | 2024 | β |
| Exploring the transcriptional cooperation between RUNX2 and its associated elncRNA RAIN. | Vitale E et al. | β | 2024 | β |
| Folate-mediated transgenerational inheritance of sperm DNA methylation patterns correlate with spinal axon regeneration. | Madrid A et al. | β | 2024 | β |
| Functional Characterization of Accessible Chromatin in Common Wheat. | Zheng D et al. | β | 2024 | β |
| Genetic and neuro-epigenetic effects of divergent artificial selection for feather pecking behaviour in chickens. | de Haas EN et al. | β | 2024 | β |
| Genome binding properties of Zic transcription factors underlie their changing functions during neuronal maturation. | Minto MS et al. | β | 2024 | β |
| Genome-Wide Analysis Reveals Copy Number Variant Gene <i>TGFBR3</i> Regulates Pig Back Fat Deposition. | Zhang C et al. | β | 2024 | β |
| Genome-wide characterization of dynamic DNA 5-hydroxymethylcytosine and TET2-related DNA demethylation during breast tumorigenesis. | Wu SL et al. | β | 2024 | β |
| Genome-wide epigenetic dynamics of tea leaves under mechanical wounding stress during oolong tea postharvest processing. | Zheng Y et al. | β | 2024 | β |
| HDAC1 and HDAC2 orchestrate Wnt signaling to regulate neural progenitor transition during brain development. | Zhu Y et al. | β | 2024 | β |
| High-throughput capture of transcription factor-driven epigenome dynamics using PHILO ChIP-seq. | Choudhary A et al. | β | 2024 | β |
| Histone H3.3 lysine 9 and 27 control repressive chromatin at cryptic enhancers and bivalent promoters. | Trovato M et al. | β | 2024 | β |
| Histone H4 acetylation differentially modulates proliferation in adult oligodendrocyte progenitors. | Dansu DK et al. | β | 2024 | β |
| Histone modification H3K27me3 is essential during chilling-induced flowering in Litchi chinensis. | Pan X et al. | β | 2024 | β |
| HOXDeRNA activates a cancerous transcription program and super enhancers via genome-wide binding. | Deforzh E et al. | β | 2024 | β |
| Human genomic DNA is widely interspersed with i-motif structures. | PeΓ±a Martinez CD et al. | β | 2024 | β |
| Hypoxia-inducible factor 2Ξ± promotes pathogenic polarization of stem-like Th2 cells via modulation of phospholipid metabolism. | Zou X et al. | β | 2024 | β |
| Hypoxic stabilization of RIPOR3 mRNA via METTL3-mediated m<sup>6</sup>A methylation drives breast cancer progression and metastasis. | Xiong J et al. | β | 2024 | β |
| Identifying the HIV-Resistance-Related Factors and Regulatory Network via Multi-Omics Analyses. | Long X et al. | β | 2024 | β |
| IL-4 drives exhaustion of CD8<sup>+</sup> CART cells. | Stewart CM et al. | β | 2024 | β |
| Integrated multi-omics analysis of PBX1 in mouse adult neural stem- and progenitor cells identifies a transcriptional module that functionally links PBX1 to TCF3/4. | Laub V et al. | β | 2024 | β |
| Integrated multi-omics analysis of zinc-finger proteins uncovers roles in RNA regulation. | Gosztyla ML et al. | β | 2024 | β |
| Integrative Analysis of ATAC-Seq and RNA-Seq through Machine Learning Identifies 10 Signature Genes for Breast Cancer Intrinsic Subtypes. | Park JW et al. | β | 2024 | β |
| Integrative Analysis of Chromatin Accessibility and Transcriptional Landscape Identifies Key Genes During Muscle Development in Pigs. | Zhang D et al. | β | 2024 | β |
| KRAS-mediated upregulation of CIP2A promotes suppression of PP2A-B56Ξ± to initiate pancreatic cancer development. | Tinsley SL et al. | β | 2024 | β |
| Laminin-Ξ±2 chain deficiency in skeletal muscle causes dysregulation of multiple cellular mechanisms. | Martins SG et al. | β | 2024 | β |
| LHP1 and INO80 cooperate with ethylene signaling for warm ambient temperature response by activating specific bivalent genes. | Shao Z et al. | β | 2024 | β |
| Light-responsive transcription factors VvHYH and VvGATA24 mediate wax terpenoid biosynthesis in Vitis vinifera. | Yang M et al. | β | 2024 | β |
| LILRB4 represents a promising target for immunotherapy by dual targeting tumor cells and myeloid-derived suppressive cells in multiple myeloma. | Gong L et al. | β | 2024 | β |
| Lipid synthesis, triggered by PPARΞ³ T166 dephosphorylation, sustains reparative function of macrophages during tissue repair. | Zuo S et al. | β | 2024 | β |
| Loss of cold tolerance is conferred by absence of the WRKY34 promoter fragment during tomato evolution. | Guo M et al. | β | 2024 | β |
| Maternally expressed FERTILIZATION-INDEPENDENT ENDOSPERM1 regulates seed dormancy and aleurone development in rice. | Cheng X et al. | β | 2024 | β |
| Mechanism of efficacy of trabectedin against myxoid liposarcoma entails detachment of the FUS-DDIT3 transcription factor from its DNA binding sites. | Craparotta I et al. | β | 2024 | β |
| MECOM Locus classical transcript isoforms affect tumor immune microenvironment and different targets in ovarian cancer. | Lan N et al. | β | 2024 | β |
| Meiotic chromatin-associated HSF5 is indispensable for pachynema progression and male fertility. | Luo C et al. | β | 2024 | β |
| MEK inhibition prevents CAR-T cell exhaustion and differentiation via downregulation of c-Fos and JunB. | Wang X et al. | β | 2024 | β |
| Neuropeptide signalling orchestrates T cell differentiation. | Hou Y et al. | β | 2024 | β |
| Nonclassical action of Ku70 promotes Treg-suppressive function through a FOXP3-dependent mechanism in lung adenocarcinoma. | Huang Q et al. | β | 2024 | β |
| Noncoding variation near UBE2E2 orchestrates cardiometabolic pathophenotypes through polygenic effectors. | Zhang Y et al. | β | 2024 | β |
| Novel CAR-T Cells Specifically Targeting SIA-CIgG Demonstrate Effective Antitumor Efficacy in Bladder Cancer. | Ding M et al. | β | 2024 | β |
| Novel mechanisms of MITF regulation identified in a mouse suppressor screen. | Vu HN et al. | β | 2024 | β |
| Novel Ser74 of NF-ΞΊB/IΞΊBΞ± phosphorylated by MAPK/ERK regulates temperature adaptation in oysters. | Wang C et al. | β | 2024 | β |
| NSD2 is a requisite subunit of the AR/FOXA1 neo-enhanceosome in promoting prostate tumorigenesis. | Parolia A et al. | β | 2024 | β |
| N<sup>6</sup>-Methyladenosine RNA Modification Regulates Maize Resistance to Maize Chlorotic Mottle Virus Infection. | Xia Z et al. | β | 2024 | β |
| N-terminus of <i>Drosophila melanogaster</i> MSL1 is critical for dosage compensation. | Babosha V et al. | β | 2024 | β |
| Nuclear factor-Y-polycomb repressive complex2 dynamically orchestrates starch and seed storage protein biosynthesis in wheat. | Chen J et al. | β | 2024 | β |
| Nuclear lamin A/C phosphorylation by loss of androgen receptor leads to cancer-associated fibroblast activation. | Ghosh S et al. | β | 2024 | β |
| Nuclear receptor E75/NR1D2 promotes tumor malignant transformation by integrating Hippo and Notch pathways. | Wang X et al. | β | 2024 | β |
| Omega-3 reverses the metabolic and epigenetically regulated placental phenotype acquired from preconceptional and peri-conceptional exposure to air pollutants. | Ganguly A et al. | β | 2024 | β |
| P300 regulates histone crotonylation and preimplantation embryo development. | Gao D et al. | β | 2024 | β |
| Phospho-regulation of ASCL1-mediated chromatin opening during cellular reprogramming. | Azzarelli R et al. | β | 2024 | β |
| PICKLE-mediated nucleosome condensing drives H3K27me3 spreading for the inheritance of Polycomb memory during differentiation. | Liang Z et al. | β | 2024 | β |
| PPIA-coExp: Discovering Context-Specific Biomarkers Based on Protein-Protein Interactions, Co-Expression Networks, and Expression Data. | Yan D et al. | β | 2024 | β |
| PRC2-EZH1 contributes to circadian gene expression by orchestrating chromatin states and RNA polymerase II complex stability. | Liu P et al. | β | 2024 | β |
| Provision of choline chloride to the bovine preimplantation embryo alters postnatal body size and DNA methylationβ . | Haimon MLJ et al. | β | 2024 | β |
| quaqc: efficient and quick ATAC-seq quality control and filtering. | Tremblay BJM et al. | β | 2024 | β |
| Rapid profiling of transcription factor-cofactor interaction networks reveals principles of epigenetic regulation. | Inge MM et al. | β | 2024 | β |
| Regulatory insight for a Zn2Cys6 transcription factor controlling effector-mediated virulence in a fungal pathogen of wheat. | John E et al. | β | 2024 | β |
| Regulatory role of N6-Methyladenosine on skeletal muscle development in Hu sheep. | Jiang J et al. | β | 2024 | β |
| Repressor elements provide insights into tissue development and phenotypes in pigs. | Zhang YD et al. | β | 2024 | β |
| Ribosome biogenesis is essential for hemogenic endothelial cells to generate hematopoietic stem cells. | Liu D et al. | β | 2024 | β |
| RING1 missense variants reveal sensitivity of DNA damage repair to H2A monoubiquitination dosage during neurogenesis. | Ryan CW et al. | β | 2024 | β |
| RNA sequestration in P-bodies sustains myeloid leukaemia. | Kodali S et al. | β | 2024 | β |
| Robust estimation of cancer and immune cell-type proportions from bulk tumor ATAC-Seq data. | Gabriel AA et al. | β | 2024 | β |
| Role of Csdc2 in Regulating Secondary Hair Follicle Growth in Cashmere Goats. | Zhu H et al. | β | 2024 | β |
| Role of the <i>Egr2</i> Promoter Antisense RNA in Modulating the Schwann Cell Chromatin Landscape. | Martinez Moreno M et al. | β | 2024 | β |
| scNanoSeq-CUT&Tag: a single-cell long-read CUT&Tag sequencing method for efficient chromatin modification profiling within individual cells. | Li Q et al. | β | 2024 | β |
| Simultaneous profiling of RNA isoforms and chromatin accessibility of single cells of human retinal organoids. | Zhang S et al. | β | 2024 | β |
| Single-cell multi-modal chromatin profiles revealing epigenetic regulations of cells in hepatocellular carcinoma. | Wang C et al. | β | 2024 | β |
| SIRT6-dependent functional switch via K494 modifications of RE-1 silencing transcription factor. | Zaretsky A et al. | β | 2024 | β |
| Sirtuin 1 regulates the phenotype and functions of dendritic cells through Ido1 pathway in obesity. | de Lima J et al. | β | 2024 | β |
| SMYD5 is a regulator of the mild hypothermia response. | Rafnsdottir S et al. | β | 2024 | β |
| Spatial organizations of heterochromatin underpin nuclear structural integrity of ventricular cardiomyocytes against mechanical stress. | Fujiwara K et al. | β | 2024 | β |
| SpikeFlow: automated and flexible analysis of ChIP-Seq data with spike-in control. | Bressan D et al. | β | 2024 | β |
| Squamous cell carcinoma is associated with reduced IL34 expression, alterations in the Langerhans cell antigen-processing-presentation machinery and poor patient survival. | Dang TVT et al. | β | 2024 | β |
| SRSF2 safeguards efficient transcription of DNA damage and repair genes. | Wagner RE et al. | β | 2024 | β |
| Stabilization of RRBP1 mRNA via an m<sup>6</sup>A-dependent manner in prostate cancer constitutes a therapeutic vulnerability amenable to small-peptide inhibition of METTL3. | Feng Y et al. | β | 2024 | β |
| Stress increases sperm respiration and motility in mice and men. | Moon N et al. | β | 2024 | β |
| STUB1-mediated ubiquitination and degradation of NSUN2 promotes hepatocyte ferroptosis by decreasing m<sup>5</sup>C methylation of Gpx4 mRNA. | Zhang X et al. | β | 2024 | β |
| Synergistic activation by Glass and Pointed promotes neuronal identity in the Drosophila eye disc. | Wang H et al. | β | 2024 | β |
| Systematic identification of post-transcriptional regulatory modules. | Khoroshkin M et al. | β | 2024 | β |
| Systematic perturbations of SETD2, NSD1, NSD2, NSD3, and ASH1L reveal their distinct contributions to H3K36 methylation. | Shipman GA et al. | β | 2024 | β |
| Testosterone-Induced H3K27 Deacetylation Participates in Granulosa Cell Proliferation Suppression and Pathogenesis of Polycystic Ovary Syndrome. | Tong X et al. | β | 2024 | β |
| TFEB controls expression of human syncytins during cell-cell fusion. | Esbin MN et al. | β | 2024 | β |
| T-follicular helper cells are epigenetically poised to transdifferentiate into T-regulatory type 1 cells. | Garnica J et al. | β | 2024 | β |
| The AP2 transcription factor BARE RECEPTACLE regulates floral organogenesis via auxin pathways in woodland strawberry. | Lu R et al. | β | 2024 | β |
| The Ashkenazi-Centric G334R Variant of <i>TP53</i> is Severely Impaired for Transactivation but Retains Tumor Suppressor Function in a Mouse Model. | Stieg DC et al. | β | 2024 | β |
| The chromatin remodeling factor OsINO80 promotes H3K27me3 and H3K9me2 deposition and maintains TE silencing in rice. | Du K et al. | β | 2024 | β |
| The chromodomain protein CDYL confers forebrain identity to human cortical organoids by inhibiting neuronatin. | Yang Y et al. | β | 2024 | β |
| The H1/H5 domain contributes to OsTRBF2 phase separation and gene repression during rice development. | Xuan H et al. | β | 2024 | β |
| The H3.3K36M oncohistone disrupts the establishment of epigenetic memory through loss of DNA methylation. | Sinha J et al. | β | 2024 | β |
| The interferon Ξ³ pathway enhances pluripotency and X-chromosome reactivation in iPSC reprogramming. | Barrero M et al. | β | 2024 | β |
| The pluripotent-to-totipotent state transition in mESCs activates the intrinsic apoptotic pathway through DUX-induced DNA replication stress. | Jia S et al. | β | 2024 | β |
| The scaffolding function of LSD1 controls DNA methylation in mouse ESCs. | Malla S et al. | β | 2024 | β |
| The stress response regulator HSF1 modulates natural killer cell anti-tumour immunity. | Hockemeyer K et al. | β | 2024 | β |
| The tea cultivar 'Chungui' with jasmine-like aroma: From genome and epigenome to quality. | Li X et al. | β | 2024 | β |
| The transcription factor MYC2 positively regulates terpene trilactone biosynthesis through activating <i>GbGGPPS</i> expression in <i>Ginkgo biloba</i>. | Zheng J et al. | β | 2024 | β |
| Thr<sup>4</sup> phosphorylation on RNA Pol II occurs at early transcription regulating 3'-end processing. | Moreno RY et al. | β | 2024 | β |
| Transcriptional and epigenetic characterization of a new in vitro platform to model the formation of human pharyngeal endoderm. | Cipriano A et al. | β | 2024 | β |
| Transcriptional re-programming of liver-resident iNKT cells into T-regulatory type-1-like liver iNKT cells involves extensive gene de-methylation. | MontaΓ±o J et al. | β | 2024 | β |
| Transcription factor TCF1 binds to RORΞ³t and orchestrates a regulatory network that determines homeostatic Th17 cell state. | Mangani D et al. | β | 2024 | β |
| Transcriptome-wide m6A methylation profile reveals its potential role underlying drought response in wheat (Triticum aestivum L.). | Pan Y et al. | β | 2024 | β |
| Transposable Elements Contribute to the Regulation of Long Noncoding RNAs in <i>Drosophila melanogaster</i>. | Gan Y et al. | β | 2024 | β |
| Type II topoisomerases shape multi-scale 3D chromatin folding in regions of positive supercoils. | Longo GMC et al. | β | 2024 | β |
| Uncoupling FRUITFULL's functions through modification of a protein motif identified by co-ortholog analysis. | Thoris K et al. | β | 2024 | β |
| Yin Yang 1 and guanine quadruplexes protect dopaminergic neurons from cellular stress via transmissive dormancy. | Zuurbier KR et al. | β | 2024 | β |
| YY1 knockout in pro-B cells impairs lineage commitment, enabling unusual hematopoietic lineage plasticity. | Banerjee S et al. | β | 2024 | β |
| Zinc-Finger Protein ZFP488 Regulates the Timing of Oligodendrocyte Myelination and Remyelination. | Cui S et al. | β | 2024 | β |
| ZmICE1a regulates the defence-storage trade-off in maize endosperm. | Wang Q et al. | β | 2024 | β |